About

In this markdown, we will do a comparison of the transcriptomes during development of Ptychodera, Amphixous, and Purple Sea Urchin.

For this, we will use a solution of custom R functions and wrappers that we have named “comparABle” (kudos to @agilgal for the name!).

Load libraries

library(tidyverse)
library(stringr)
library(BiocGenerics)
library(EDASeq)
library(DESeq2)
library(tximport)
library(limma)
library(ComplexHeatmap)
library(circlize)
library(RColorBrewer)
require(data.table)
require(stringr)
require(tidytree)
require(ggtree)
require(rvcheck)
require(treeio)
require(dendextend)
require(phangorn)
require(phytools)
require(ComplexHeatmap)
require(foreach)
require(doParallel)
require(colorspace)
library(topGO)

Load functions

source("code/r_code/r_functions/sourcefolder.R")

sourceFolder(
  "code/r_code/r_functions",
  recursive = TRUE
  )

sourceFolder(
  "code/r_code/r_general",
  recursive = TRUE
  )

Load Data

We will first load the data of our three species:

# Ptychodera analyses
load("outputs/rda/deseq2.rda")
# Amphioxus reanalysis
load("outputs/rda/blan_reanalysis.rda")
# Purple Sea Urchin reanalysis
load("outputs/rda/spur_reanalysis.rda")

We will follow by loading all the gene family data that we need. This is the gene/gfam lookup table (extracted from the OrthoXML output file from OMA) and the respective table to transform the gene indexes into the actual gene id of every species.

gene_gfam <- 
  read.delim2(
    file = "outputs/comparative/20240404_orthofinder/Orthogroups_melt.tsv",
    header = TRUE
  )

This gene_gfam file will be used later on as proxy to compare developmental stages.

head(gene_gfam)
##            id      gfam
## 1 AENJA_00110 OG0000000
## 2 AENJA_00111 OG0000000
## 3 AENJA_01531 OG0000000
## 4 AENJA_01537 OG0000000
## 5 AENJA_01755 OG0000000
## 6 AENJA_05264 OG0000000
OF_pfla_blan <- read.delim2("outputs/comparative/20240404_orthofinder/one_to_one_orthologues/1to1_pfla_blan.tsv", header = TRUE)
OF_pfla_spur <- read.delim2("outputs/comparative/20240404_orthofinder/one_to_one_orthologues/1to1_pfla_spur.tsv", header = TRUE)
load("outputs/rda/geneage.rda")

For more functional annotation, we will use the COG functional categories and the GO terms of Ptychodera.

pfla_cogs <- read.table(
  "outputs/functional_annotation/COGs/pfla_cogs.tsv",
  col.names = c("id","cog")
)

# GO terms
pfla_id2go <- 
  readMappings(
    "outputs/functional_annotation/go_blast2go/GO_annotation.txt"
  )

Ptychodera and Amphioxus

We will first compare the transcriptomes and stage-specific clusters of Ptychodera and Amphioxus. For this, we will define a number of objects that will enter into our custom wrapper function comparABle. The most important of them being:

In addition, we will also pass it a list of gene ontologies, a COG functional category association file, and a list of gene ages that are shared between species A and B.

# Expression data
a = pfla_rna_counts
b = blan_counts

# Samples for rowmeans_by repl
a_samples = levels(condition_x)
b_samples = unique(sub("_.$", "", colnames(b)))

# Family/orthology data
o = unique(OF_pfla_blan)
f = gene_gfam[grep("TCONS|BRALA",gene_gfam$id),]
f$id <- gsub("\\.p[0-9]+","",f$id)

# Module/Cluster information
ma = data.frame(
  id = rownames(pfla_rna_dev),
  module = pfla_rna_dev$cID
)

mb = blan_cl
colnames(mb) <- c("id","module")

# Gene Age
ga = pfla_age[,c(1,3)]
colnames(ga) = c("id","age")

# COG
cog_a <- pfla_cogs

# GOs
a_universe = rownames(vsd_allgen)
a_id2go = pfla_id2go

# Common Evo Nodes
common_evo_nodes = unique(ga$age)[!(unique(ga$age) %in% c("6_Ambul","7_Hemich","8_Pfla"))]

Below we will run the comparABle wrapper. Briefly, what this wrapper does is:

This can take some time.

PFLA_BLAN_COMPARISON_OF <- comparABle(
  a_name = "P.flava",
  b_name = "B.lanceolatum",
  a = a,
  b = b,
  o = o,
  f = f,
  ma = ma,
  mb = mb,
  ga = ga,
  gb = gb,
  cog_a = cog_a,
  cog_b = cog_b,
  a_samples = a_samples,
  b_samples = b_samples,
  highlyvariable = FALSE,
  cooc_p = 0.05,
  cooc_h = c(0.70,0.95),
  cooc_cor_method = "pearson",
  a_universe = a_universe,
  a_id2go = a_id2go,
  common_evo_nodes = common_evo_nodes,
  sep = ",\ "
)
## [1] "Tidy up data"
## Loading required package: preprocessCore
## [1] "Merge data"
## [1] "Correlations"
## [1] "PCA"
## [1] "Co-Occurrence"
## [1] "Common genes in Correlations"
## Loading required package: ggpointdensity
## The top five similar pair of stages are: 19.2192 19.45585 19.6026 19.67682 19.74663 
## [1] "Subsetting count matrices"
## [1] "Model fitting and top genes"
## Loading required package: edgeR
## [1] "Common genes in Correlations (GO)"
## [1] "Starting analysis 1 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3284 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 2 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3072 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 3 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3007 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 4 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3270 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 5 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2826 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Common genes in Correlations (age)"
## [1] "Pairwise Orthology Overlap Strategy across modules -- hypergeometric and binonmial tests"
## [1] "Getting info on genes from shared families across modules"
## [1] "Starting analysis 1 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 4148 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 2 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 4441 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 3 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3954 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 4 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3699 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 5 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3379 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 6 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2909 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 7 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2661 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 8 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2186 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 9 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1816 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 10 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2892 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 11 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3002 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 12 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2482 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 13 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3610 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 14 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2647 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 15 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1409 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 16 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3158 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 17 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3079 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 18 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1957 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 19 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2010 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 20 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3061 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Plots"
## [1] "Generating results"

After running this we can start exploring the comparisons. First we will tidy up the pairwise correlation data and add names to the rows and columns of the jensen-shannon distance matrix.

Here are the heatmaps of pairwise correlations between Ptychodera and Amphioxus.

plot_cors(PFLA_BLAN_COMPARISON_OF$pairwise_correlations)

A quick sanity check that this is consistently observed regardles of genes by doing some bootstraping and checkin the mean observed JSD:

js_mean <- jsd_with_subsampling(
  a_o = PFLA_BLAN_COMPARISON_OF$merged_data$a_o , 
  b_o = PFLA_BLAN_COMPARISON_OF$merged_data$b_o, 
  n = 1000, p = 0.25
)

#relativise to min and max values
js_mean_rel <- relativise(js_mean$mean)

h3_avg_rel <- Heatmap(js_mean_rel,cluster_rows = F, cluster_columns = F, show_row_names = TRUE, name = "JSD", col = brewer.pal(10,"RdBu"))
draw(h3_avg_rel)

Here is the average expression profile of genes more expressed in the most similar stages between Ptychodera an Amphioxus, including GO terms and age enrichment:

# Common genes, highly correlated
p1 <- plot_hicor_genes(
  scatter = PFLA_BLAN_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[1]]$plot_topgenes,
  GO_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$GOs$GOtable[[1]],
  age_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[1]]$AgeperModule,
  age_enrichemnt_hm = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[1]]$heatmap
)
p2 <- plot_hicor_genes(
  scatter = PFLA_BLAN_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[2]]$plot_topgenes,
  GO_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$GOs$GOtable[[2]],
  age_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[2]]$AgeperModule,
  age_enrichemnt_hm = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[2]]$heatmap
)
p3 <- plot_hicor_genes(
  scatter = PFLA_BLAN_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[3]]$plot_topgenes,
  GO_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$GOs$GOtable[[3]],
  age_table = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[3]]$AgeperModule,
  age_enrichemnt_hm = PFLA_BLAN_COMPARISON_OF$high_corr_genes$age[[3]]$heatmap
)

plot_grid(p1,p2,p3,ncol = 1)

Here is the co-occurrence analysis showcasing the Amphioxus stages most similar to Ptychodera gastrulation are the stages corresponding to neurulation.

Heatmap(
  name = "co-occurrence",
  PFLA_BLAN_COMPARISON_OF$coocurrence_analysis$cooccurrence[1:16,17:28],
  cluster_rows = F,
  cluster_columns = F,
  col = sequential_hcl(10,"YlOrRd", rev = TRUE)
)

Here the orthology overlap strategy showcasing similarities at the gene family usage between hemichordate larval stages and amphioxus post-gastrulation development

pf_avg_hm+
PFLA_BLAN_COMPARISON_OF$plots$orthology_overlap_binomial_hm+
PFLA_BLAN_COMPARISON_OF$plots$orthology_overlap_hypgeom_hm

Here is a quick overview of the stats of the hypergeometric and binomial tests for pairwise comparisons:

summary(PFLA_BLAN_COMPARISON_OF$orthology_overlap_modules$pairwise_module_comparison$stats)
##    module_a           module_b         success_in_samples sample_size       
##  Length:550         Length:550         Length:550         Length:550        
##  Class :character   Class :character   Class :character   Class :character  
##  Mode  :character   Mode  :character   Mode  :character   Mode  :character  
##                                                                             
##                                                                             
##                                                                             
##  success_in_pop       gene_POP          hypgeom_pval        hypgeom_log     
##  Length:550         Length:550         Min.   :0.0000000   Min.   :  0.000  
##  Class :character   Class :character   1st Qu.:0.0000000   1st Qu.:  1.621  
##  Mode  :character   Mode  :character   Median :0.0007268   Median :  7.228  
##                                        Mean   :0.1647946   Mean   : 12.234  
##                                        3rd Qu.:0.1976050   3rd Qu.: 17.128  
##                                        Max.   :1.0000000   Max.   :226.377  
##    binom_pval        gfams_common       gfams_excl_a       gfams_excl_b      
##  Min.   :0.0000000   Length:550         Length:550         Length:550        
##  1st Qu.:0.0000001   Class :character   Class :character   Class :character  
##  Median :0.0007450   Mode  :character   Mode  :character   Mode  :character  
##  Mean   :0.1413739                                                           
##  3rd Qu.:0.1368170                                                           
##  Max.   :1.0000000

These is a quick overview at the number of genes in enriched gene families between pairs of comparisons:

# Group by module and summarize
commongenes <- PFLA_BLAN_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$table_a_common %>%
  group_by(module) %>%
  summarize(
    numgenes = n(),
    genes = paste(ifelse(n() > 3, paste0(paste(head(id, 3), collapse = ",")," ..."), paste(id, collapse = ", ")), collapse = ", ")
  )

# Rename columns
colnames(commongenes) <- c("module", "numgenes", "genes")

head(commongenes)
## # A tibble: 6 × 3
##   module numgenes genes                                           
##   <chr>     <int> <chr>                                           
## 1 02__3       162 TCONS_00031538,TCONS_00032505,TCONS_00022997 ...
## 2 02__6       162 TCONS_00023197,TCONS_00023330,TCONS_00024839 ...
## 3 03__8       124 TCONS_00024709,TCONS_00024711,TCONS_00023765 ...
## 4 06__6       284 TCONS_00038700,TCONS_00038727,TCONS_00041502 ...
## 5 14__18      211 TCONS_00039151,TCONS_00039158,TCONS_00038525 ...
## 6 15__21      238 TCONS_00032648,TCONS_00038402,TCONS_00038444 ...

And here the combination of gene age and functional categories enrichment:

PFLA_BLAN_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$
    age_a_common$heatmap +
PFLA_BLAN_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$
    cog_a_comon$heatmap

And here the gene ontology enrichment of enriched gene families between pairs of modules.

# Add a new column with the name of the original data frame
keygenes_commonfams_GO <- 
  bind_rows(
    PFLA_BLAN_COMPARISON_OF$orthology_overlap_modules$
      genes_in_common_fams$commonfams$go_a_common$GOtable, 
    .id = "pair_gfams"
    )

# Rename the new column
colnames(keygenes_commonfams_GO)[1] <- "pair_gfams"

keygenes_commonfams_GO$logp <- 
  -log10(as.numeric(keygenes_commonfams_GO$classicFisher))

keygenes_commonfams_GO$logp[is.na(keygenes_commonfams_GO$logp)] <- 
  max(keygenes_commonfams_GO$logp, na.rm = T)

keygenes_commonfams_GO$obsexp <- 
  as.numeric(keygenes_commonfams_GO$Significant/keygenes_commonfams_GO$Expected)

keygenes_commonfams_GO <- 
  keygenes_commonfams_GO[
    order(
      keygenes_commonfams_GO$pair_gfams,
      keygenes_commonfams_GO$Term
      ),
    ]

keygenes_commonfams_GO$Term <- 
  factor(
    keygenes_commonfams_GO$Term, 
    levels = unique(keygenes_commonfams_GO$Term)
    )

The GO plot here:

gg <- keygenes_commonfams_GO  %>% 
  ggplot(
    aes(x=pair_gfams, y = Term, size = Significant, color = logp)
    ) + geom_point() +
  theme_bw() + 
  theme(
    axis.text.x = element_text(angle = 45, hjust = 1, size = 8 )
    )+ 
  theme(
    axis.text.y.left = element_text(hjust = 1, size = 8 ),
    legend.title=element_text(size=8 ),
    legend.text=element_text(size=8 )
    )+ 
  scale_size_continuous(
    name = "Genes affected",
    range = c(2,6)
    ) + scale_color_viridis("-log10(P-value)") +
  xlab("")+ylab("")

#gg

Ptychodera and Purple Sea Urchin

We will proceed the same as before using sea urchin in this case. Again, we define all the data necessary for the comparABle wrapper:

# Expression data
a = pfla_rna_counts
b = spur_vsd

# Samples for rowmeans_by repl
a_samples = levels(condition_x)
b_samples = unique(sub("_.$", "", colnames(b)))

# Family/orthology data
o = unique(OF_pfla_spur)
f = gene_gfam[grep("TCONS|STRPU",gene_gfam$id),]
f$id <- gsub("\\.p[0-9]+","",f$id)

# Module/Cluster information
ma = data.frame(
  id = rownames(pfla_rna_dev),
  module = pfla_rna_dev$cID
)

mb = spur_cl
colnames(mb) <- c("id","module")

# Gene Age
ga = pfla_age[,c(1,3)]
colnames(ga) = c("id","age")

# COG
cog_a <- pfla_cogs

# GOs
a_universe = rownames(vsd_allgen)
a_id2go = pfla_id2go

# Common Evo Nodes
common_evo_nodes = unique(ga$age)[!(unique(ga$age) %in% c("7_Hemich","8_Pfla"))]

And we run comparABle:

PFLA_SPUR_COMPARISON_OF <- comparABle(
  a_name = "P.flava",
  b_name = "S.purpuratus",
  a = a,
  b = b,
  o = o,
  f = f,
  ma = ma,
  mb = mb,
  ga = ga,
  gb = gb,
  cog_a = cog_a,
  cog_b = cog_b,
  a_samples = a_samples,
  b_samples = b_samples,
  highlyvariable = FALSE,
  cooc_p = 0.05,
  cooc_h = c(0.70,0.95),
  cooc_cor_method = "pearson",
  a_universe = a_universe,
  a_id2go = a_id2go,
  common_evo_nodes = common_evo_nodes,
  sep = ",\ "
)
## [1] "Tidy up data"
## [1] "Merge data"
## [1] "Correlations"
## [1] "PCA"
## [1] "Co-Occurrence"
## [1] "Common genes in Correlations"
## The top five similar pair of stages are: 17.42948 17.57871 18.07031 18.2674 18.41027 
## [1] "Subsetting count matrices"
## [1] "Model fitting and top genes"
## [1] "Common genes in Correlations (GO)"
## [1] "Starting analysis 1 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 216 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 2 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 217 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 3 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 582 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 4 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 204 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 5 of 5"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 441 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Common genes in Correlations (age)"
## [1] "Pairwise Orthology Overlap Strategy across modules -- hypergeometric and binonmial tests"
## [1] "Getting info on genes from shared families across modules"
## [1] "Starting analysis 1 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1828 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 2 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1653 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 3 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2000 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 4 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2471 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 5 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 778 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 6 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 3558 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 7 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1329 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 8 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2967 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 9 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1276 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 10 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1126 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 11 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2020 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 12 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1953 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 13 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2969 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 14 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1433 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 15 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 371 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 16 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1533 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 17 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1427 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 18 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1045 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 19 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 1362 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Starting analysis 20 of 20"
## 
## Building most specific GOs .....
##  ( 15540 GO terms found. )
## 
## Build GO DAG topology ..........
##  ( 15584 GO terms and 36018 relations. )
## 
## Annotating nodes ...............
##  ( 15464 genes annotated to the GO terms. )
## 
##           -- Classic Algorithm -- 
## 
##       the algorithm is scoring 2292 nontrivial nodes
##       parameters: 
##           test statistic: fisher
## [1] "Plots"
## [1] "Generating results"

The heatmaps of pairwise correlations and jensen-shannon divergence between Ptychodera and Sea Urchin:

plot_cors(PFLA_SPUR_COMPARISON_OF$pairwise_correlations)

A quick sanity check that this is consistently observed regardles of genes by doing some bootstraping and checkin the mean observed JSD:

js_mean <- jsd_with_subsampling(
  a_o = PFLA_SPUR_COMPARISON_OF$merged_data$a_o , 
  b_o = PFLA_SPUR_COMPARISON_OF$merged_data$b_o, 
  n = 1000, p = 0.25
)

#relativise to min and max values
js_mean_rel <- relativise(js_mean$mean)

h3_avg_rel <- Heatmap(js_mean_rel,cluster_rows = F, cluster_columns = F, show_row_names = TRUE, name = "JSD", col = brewer.pal(10,"RdBu"))
draw(h3_avg_rel)

Here is the average expression profile of genes more expressed in the most similar stages between Ptychodera an Sea Urchin, including GO terms and age enrichment:

# Common genes, highly correlated
p1 <- plot_hicor_genes(
  scatter = PFLA_SPUR_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[1]]$plot_topgenes,
  GO_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$GOs$GOtable[[1]],
  age_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[1]]$AgeperModule,
  age_enrichemnt_hm = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[1]]$heatmap
)
p2 <- plot_hicor_genes(
  scatter = PFLA_SPUR_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[2]]$plot_topgenes,
  GO_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$GOs$GOtable[[2]],
  age_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[2]]$AgeperModule,
  age_enrichemnt_hm = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[2]]$heatmap
)
p3 <- plot_hicor_genes(
  scatter = PFLA_SPUR_COMPARISON_OF$high_corr_genes$pairwise_data$hicor_topgenes[[3]]$plot_topgenes,
  GO_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$GOs$GOtable[[3]],
  age_table = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[3]]$AgeperModule,
  age_enrichemnt_hm = PFLA_SPUR_COMPARISON_OF$high_corr_genes$age[[3]]$heatmap
)

plot_grid(p1,p2,p3,ncol = 1)

And the co-ocurrence matrix shocasing ptychodera gastrulation is similar to sea urchin gastrulation as well as similarities between larval stages

Heatmap(
  name = "co-occurrence",
  PFLA_SPUR_COMPARISON_OF$coocurrence_analysis$cooccurrence[1:16,17:33],
  cluster_rows = F,
  cluster_columns = F,
  col = sequential_hcl(10,"YlOrRd", rev = TRUE)
)

Below the orthology overlap strategy showcasing similarities at the gene family usage between species:

pf_avg_hm+
PFLA_SPUR_COMPARISON_OF$plots$orthology_overlap_binomial_hm+
PFLA_SPUR_COMPARISON_OF$plots$orthology_overlap_hypgeom_hm

An overview of the stats of these tests:

head(PFLA_SPUR_COMPARISON_OF$orthology_overlap_modules$pairwise_module_comparison$stats)
##   module_a module_b success_in_samples sample_size success_in_pop gene_POP
## 2       01        1                 31        1336            234    15568
## 3       01        2                 10        1336            148    15568
## 4       01        3                  4        1336             64    15568
## 5       01        4                 11        1336            146    15568
## 6       01        5                 17        1336            145    15568
## 7       01        6                  8        1336             71    15568
##   hypgeom_pval hypgeom_log binom_pval
## 2   0.01009057   4.5961540 0.02345195
## 3   0.82667662   0.1903417 0.57116633
## 4   0.81058437   0.2099999 0.67082907
## 5   0.71768583   0.3317234 0.77691380
## 6   0.11610079   2.1532966 0.19703270
## 7   0.26268361   1.3368050 0.41112537
##                                                                                                                                                                                                                                                                                                                                          gfams_common
## 2 OG0000250, OG0000045, OG0000082, OG0004184, OG0004407, OG0000312, OG0004082, OG0000020, OG0007691, OG0000016, OG0001670, OG0000972, OG0002787, OG0007497, OG0000213, OG0005448, OG0004514, OG0008797, OG0000115, OG0003480, OG0004527, OG0008389, OG0008350, OG0012844, OG0004883, OG0000623, OG0000159, OG0006243, OG0010209, OG0000360, OG0004621
## 3                                                                                                                                                                                                                                        OG0000230, OG0000116, OG0000312, OG0000310, OG0000019, OG0001412, OG0000236, OG0008389, OG0000159, OG0001614
## 4                                                                                                                                                                                                                                                                                                          OG0000152, OG0003047, OG0007478, OG0001232
## 5                                                                                                                                                                                                                             OG0000219, OG0000685, OG0000879, OG0000352, OG0000016, OG0000019, OG0000006, OG0001719, OG0000056, OG0000777, OG0000297
## 6                                                                                                                                                           OG0000054, OG0000082, OG0001903, OG0000014, OG0003365, OG0000588, OG0000067, OG0000152, OG0000218, OG0005750, OG0000007, OG0000019, OG0000011, OG0002083, OG0000056, OG0000083, OG0000456
## 7                                                                                                                                                                                                                                                              OG0001278, OG0000016, OG0000066, OG0000130, OG0000152, OG0000681, OG0000011, OG0000213
##                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 gfams_excl_a
## 2                                                                                                                                                                                                                                                                                                          OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0000219, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000685, OG0000054, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0000230, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0003013, OG0048110, OG0048111, OG0047319, OG0000879, OG0007188, OG0003847, OG0010448, OG0000352, OG0006974, OG0002646, OG0008414, OG0001127, OG0006264, OG0000534, OG0001181, OG0001082, OG0000575, OG0006609, OG0003772, OG0026859, OG0033389, OG0006615, OG0006232, OG0008054, OG0007774, OG0000116, OG0011706, OG0048097, OG0008815, OG0007339, OG0000119, OG0007647, OG0033387, OG0004377, OG0009082, OG0003543, OG0009102, OG0004060, OG0004521, OG0001608, OG0004226, OG0007300, OG0017602, OG0011272, OG0000077, OG0015159, OG0005372, OG0003676, OG0004786, OG0003699, OG0004144, OG0006545, OG0001316, OG0010641, OG0000048, OG0001419, OG0003900, OG0001559, OG0006125, OG0004041, OG0001279, OG0008602, OG0003998, OG0001741, OG0005614, OG0047286, OG0001188, OG0008569, OG0005822, OG0009620, OG0000239, OG0005465, OG0006172, OG0047260, OG0005633, OG0004692, OG0007653, OG0005613, OG0002487, OG0010542, OG0008027, OG0001903, OG0007461, OG0002639, OG0009150, OG0002368, OG0003360, OG0014112, OG0004751, OG0006353, OG0002028, OG0017239, OG0008422, OG0000257, OG0009058, OG0000363, OG0006385, OG0026085, OG0009475, OG0003471, OG0002875, OG0000014, OG0004884, OG0003435, OG0006849, OG0005055, OG0006149, OG0010827, OG0000724, OG0005079, OG0000128, OG0005270, OG0000391, OG0004907, OG0009724, OG0005699, OG0000696, OG0008567, OG0004202, OG0008673, OG0007817, OG0002761, OG0000102, OG0007314, OG0007541, OG0002376, OG0005124, OG0001018, OG0002722, OG0000548, OG0003135, OG0006225, OG0006001, OG0004644, OG0020520, OG0003004, OG0002975, OG0001673, OG0000124, OG0002103, OG0007177, OG0006747, OG0007277, OG0008649, OG0009723, OG0013721, OG0047278, OG0007309, OG0018375, OG0006373, OG0005175, OG0008311, OG0010226, OG0011256, OG0007335, OG0007450, OG0003292, OG0001490, OG0012810, OG0006136, OG0001177, OG0000429, OG0004645, OG0012872, OG0003625, OG0003859, OG0008028, OG0008767, 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## 3                                                                   OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0000219, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000685, OG0000054, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0000250, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0000045, OG0003013, OG0048110, OG0048111, OG0047319, OG0000879, OG0007188, OG0003847, OG0010448, OG0000352, OG0006974, OG0002646, OG0008414, OG0000082, OG0001127, OG0006264, OG0000534, OG0001181, OG0001082, OG0000575, OG0006609, OG0003772, OG0026859, OG0033389, OG0006615, OG0006232, OG0008054, OG0007774, OG0011706, OG0048097, OG0008815, OG0007339, OG0000119, OG0007647, OG0033387, OG0004377, OG0009082, OG0003543, OG0009102, OG0004060, OG0004521, OG0001608, OG0004226, OG0007300, OG0017602, OG0011272, OG0000077, OG0015159, OG0005372, OG0003676, OG0004786, OG0003699, OG0004144, OG0006545, OG0001316, OG0010641, OG0000048, OG0001419, OG0003900, OG0001559, OG0006125, OG0004041, OG0001279, OG0008602, OG0003998, OG0001741, OG0005614, OG0047286, OG0001188, OG0008569, OG0005822, OG0009620, OG0000239, OG0005465, OG0006172, OG0047260, OG0005633, OG0004692, OG0007653, OG0005613, OG0002487, OG0010542, OG0008027, OG0001903, OG0007461, OG0002639, OG0009150, OG0002368, OG0003360, OG0014112, OG0004751, OG0006353, OG0002028, OG0017239, OG0008422, OG0000257, OG0009058, OG0000363, OG0006385, OG0026085, OG0009475, OG0003471, OG0002875, OG0000014, OG0004884, OG0003435, OG0006849, OG0005055, OG0006149, OG0010827, OG0000724, OG0005079, OG0000128, OG0005270, OG0000391, OG0004907, OG0009724, OG0005699, OG0000696, OG0008567, OG0004202, OG0004184, OG0008673, OG0007817, OG0002761, OG0000102, OG0007314, OG0007541, OG0002376, OG0005124, OG0001018, OG0002722, OG0000548, OG0003135, OG0006225, OG0006001, OG0004644, OG0020520, OG0003004, OG0002975, OG0001673, OG0000124, OG0004407, OG0002103, OG0007177, OG0006747, OG0007277, OG0008649, OG0009723, OG0013721, OG0047278, OG0007309, OG0018375, OG0006373, OG0005175, OG0008311, OG0010226, OG0011256, OG0007335, OG0007450, OG0003292, OG0001490, OG0012810, OG0006136, OG0001177, OG0000429, OG0004645, OG0012872, OG0003625, OG0003859, OG0008028, OG0008767, OG0013481, OG0000121, OG0005439, OG0033134, OG0010155, OG0008658, OG0000288, OG0004082, OG0047398, OG0007304, OG0003340, OG0005283, OG0004209, OG0002414, OG0047402, OG0004014, OG0000994, OG0004228, OG0001103, OG0006259, OG0018867, OG0001463, OG0009125, OG0021810, OG0003365, OG0009396, OG0000279, OG0008580, OG0000185, OG0017301, OG0018987, OG0047412, OG0000037, OG0002267, OG0003855, OG0008809, OG0000676, OG0004757, OG0002835, OG0001278, OG0003370, OG0010568, OG0000325, OG0007080, OG0000175, OG0001199, OG0000527, OG0004572, OG0003679, OG0003309, OG0001344, OG0008651, OG0047742, OG0001439, OG0000214, OG0033031, OG0011442, OG0000020, OG0010154, OG0019411, OG0001722, OG0010333, OG0006702, OG0020483, OG0003670, OG0005445, OG0008682, OG0019322, OG0009216, OG0002410, OG0002740, OG0007691, OG0003536, OG0005512, OG0026163, OG0007183, OG0047882, OG0033329, OG0000341, OG0018008, OG0015529, OG0013558, OG0008510, OG0003885, OG0005950, OG0007317, OG0001857, OG0004731, OG0001864, OG0000317, OG0006379, OG0005677, OG0000434, OG0005045, OG0004942, OG0012249, OG0000247, OG0001016, OG0005855, OG0001159, OG0000293, OG0001211, OG0010890, OG0047706, OG0001753, OG0033238, OG0000031, OG0010107, OG0047708, OG0047709, OG0008009, OG0004375, OG0018953, OG0014657, OG0000567, OG0003158, OG0047115, OG0000016, OG0006138, OG0007042, OG0005590, OG0007827, OG0007496, OG0001661, OG0003284, OG0000523, OG0008305, OG0026053, OG0004616, OG0000390, OG0011708, OG0004622, OG0001656, OG0001328, OG0002912, OG0001400, OG0047159, OG0001633, OG0007495, OG0018083, OG0001551, OG0003005, OG0003702, OG0005150, OG0007667, OG0009675, OG0002531, OG0007981, OG0005173, OG0002555, OG0006338, OG0009164, OG0006572, OG0005837, OG0006199, OG0047280, OG0002435, OG0007968, OG0000477, OG0010610, OG0000780, OG0007392, OG0000113, OG0006003, OG0001252, OG0001730, OG0033167, OG0003507, OG0008760, OG0002193, OG0001235, OG0005900, OG0001625, OG0005506, OG0019476, OG0033376, OG0026262, OG0019029, OG0000810, OG0009335, OG0004160, OG0007119, OG0000109, OG0005144, OG0009421, OG0001670, OG0000925, OG0008519, OG0005294, OG0001986, OG0048045, OG0026170, OG0000392, OG0002164, OG0015720, OG0000732, OG0006106, OG0009092, OG0033373, OG0006316, OG0016075, OG0007793, OG0011977, OG0004860, OG0048067, OG0008872, OG0000066, OG0002754, OG0005191, OG0000111, OG0010545, OG0006341, OG0048068, OG0007795, OG0005277, OG0006876, OG0007847, OG0007509, OG0004389, OG0009293, OG0002789, OG0013604, OG0000588, OG0002502, OG0001337, OG0000067, OG0002562, OG0000130, OG0021764, OG0000152, OG0047671, OG0002224, OG0000972, OG0001676, OG0017364, OG0009816, OG0002212, OG0008876, OG0001858, OG0012114, OG0006990, OG0001087, OG0000400, OG0015679, OG0047676, OG0047677, OG0047678, OG0015693, OG0001360, OG0010193, OG0000727, OG0002359, OG0004296, OG0002196, OG0001493, OG0007075, OG0003388, OG0003813, OG0033230, OG0002655, OG0000316, OG0001936, OG0000218, OG0003383, OG0009424, OG0007220, OG0003492, OG0001820, OG0006276, OG0003355, OG0000063, OG0000034, OG0009824, OG0021840, OG0010181, OG0000188, OG0009152, OG0002153, OG0003176, OG0008857, OG0004921, OG0007661, OG0005766, OG0009135, OG0005142, OG0005895, OG0000326, OG0006745, OG0003716, OG0000313, OG0007338, OG0002948, OG0005242, OG0001404, OG0006683, OG0003925, OG0015535, OG0013496, OG0005418, OG0011721, OG0002779, OG0008547, OG0008079, OG0000953, OG0026255, OG0007122, OG0004121, OG0002522, OG0013239, OG0025898, OG0018068, OG0002058, OG0007806, OG0000572, OG0011766, OG0001960, OG0003926, OG0011111, OG0002418, OG0006983, OG0004808, OG0001869, OG0011654, OG0000894, OG0000681, OG0001410, OG0005750, OG0000997, OG0002712, OG0018973, OG0000337, OG0002537, OG0012840, OG0006537, OG0019357, OG0018162, OG0001233, OG0001287, OG0004402, OG0008328, OG0001704, OG0007006, OG0007044, OG0021812, OG0008075, OG0010104, OG0021772, OG0011698, OG0011672, OG0016436, OG0000007, OG0001871, OG0002401, OG0008977, OG0000322, OG0007452, OG0047857, OG0005570, OG0006668, OG0047860, OG0031954, OG0004707, OG0006365, OG0004587, OG0006881, OG0007298, OG0008432, OG0002622, OG0002095, OG0009165, OG0005423, OG0003157, OG0007800, OG0026226, OG0001519, OG0003294, OG0013488, OG0033314, OG0007010, OG0004697, OG0011168, OG0003953, OG0004781, OG0007628, OG0008043, OG0047849, OG0019213, OG0003011, OG0017282, OG0001186, OG0005609, OG0007929, OG0006262, OG0005135, OG0047448, OG0004482, OG0005245, OG0001396, OG0012225, OG0001095, OG0000895, OG0001956, OG0047453, OG0000406, OG0010920, OG0005235, OG0003884, OG0004471, OG0005272, OG0002452, OG0016427, OG0003481, OG0010861, OG0000848, OG0005979, OG0000006, OG0003134, OG0004758, OG0000142, OG0002517, OG0002149, OG0005413, OG0015531, OG0005412, OG0007633, OG0005383, OG0004628, OG0006165, OG0007527, OG0002787, OG0002491, OG0001666, OG0004403, OG0001678, OG0002336, OG0000619, OG0001790, OG0004627, OG0008280, OG0011759, OG0001584, OG0047486, OG0000011, OG0007089, OG0001555, OG0001747, OG0047488, OG0002725, OG0002459, OG0008866, OG0005373, OG0005007, OG0000084, OG0000948, OG0007773, OG0008257, OG0001139, OG0002998, OG0006993, OG0003047, OG0004803, OG0002403, OG0001511, OG0001719, OG0000731, OG0000364, OG0008323, OG0005795, OG0007497, OG0007400, OG0000256, OG0003054, OG0047520, OG0047499, OG0001401, OG0007070, OG0023006, OG0005714, OG0001001, OG0006094, OG0009043, OG0006256, OG0026187, OG0000213, OG0001496, OG0033243, OG0047087, OG0005103, OG0006389, OG0000137, OG0010223, OG0014825, OG0002293, OG0000209, OG0002841, OG0005040, OG0012719, OG0000090, OG0005448, OG0000716, OG0012716, OG0002063, OG0013613, OG0026025, OG0006387, OG0007672, OG0000040, OG0001668, OG0014127, OG0003189, OG0002629, OG0006960, OG0002879, OG0000638, OG0004820, OG0007399, OG0002499, OG0001780, OG0000074, OG0033032, OG0002135, OG0001170, OG0008595, OG0008275, OG0001554, OG0002685, OG0006694, OG0011208, OG0007284, OG0003549, OG0047110, OG0007848, OG0000890, OG0000909, OG0009839, OG0047086, OG0011032, OG0033127, OG0002022, OG0001306, OG0006686, OG0019509, OG0003376, OG0000254, OG0001613, OG0048026, OG0002656, OG0012829, OG0016442, OG0004935, OG0001743, OG0004710, OG0002070, OG0008317, OG0003557, OG0001314, OG0004345, OG0001802, OG0000453, OG0000064, OG0007660, OG0009093, OG0001305, OG0007155, OG0008318, OG0017006, OG0000529, OG0003210, OG0018984, OG0003868, OG0003036, OG0013770, OG0000412, OG0007329, OG0000151, OG0009658, OG0003737, OG0002318, OG0009568, OG0005974, OG0009129, OG0000574, OG0006376, OG0006570, OG0005522, OG0008947, OG0009168, OG0005919, OG0002628, OG0002751, OG0002217, OG0000592, OG0006987, OG0009182, OG0004909, OG0007239, OG0002855, OG0008276, OG0001571, OG0005201, OG0007417, OG0013029, OG0006908, OG0002508, OG0000201, OG0007820, OG0007316, OG0003872, OG0005857, OG0007487, OG0000323, OG0004514, OG0001582, OG0001220, OG0007736, OG0001914, OG0009544, OG0006308, OG0008524, OG0005488, OG0002799, OG0001451, OG0005377, OG0047192, OG0008284, OG0005816, OG0003128, OG0003387, OG0005815, OG0007478, OG0009565, OG0008411, OG0006634, OG0001525, OG0002479, OG0005915, OG0008870, OG0004776, OG0000721, OG0001799, OG0047174, OG0005321, OG0009411, OG0008074, OG0002297, OG0010956, OG0009571, OG0003639, OG0003291, OG0000344, OG0002344, OG0009582, OG0002211, OG0000943, OG0000643, OG0006604, OG0009180, OG0008837, OG0001164, OG0002728, OG0004988, OG0005535, OG0000800, OG0000168, OG0047166, OG0007775, OG0004789, OG0000847, OG0008797, OG0003927, OG0004788, OG0002166, OG0004995, OG0009195, OG0004914, OG0006096, OG0006010, OG0001720, OG0033075, OG0012827, OG0000241, OG0001216, OG0001234, OG0008046, OG0004903, OG0000402, OG0003371, OG0011266, OG0007243, OG0002354, OG0003251, OG0004216, OG0002908, OG0007324, OG0006513, OG0003769, OG0019446, OG0004460, OG0002034, OG0007253, OG0006180, OG0002590, OG0011764, OG0004312, OG0007111, OG0012858, OG0047245, OG0000612, OG0034480, OG0001487, OG0009140, OG0000115, OG0011207, OG0001405, OG0008496, OG0000546, OG0002461, OG0012180, OG0002421, OG0002716, OG0001868, OG0000235, OG0006098, OG0008861, OG0007160, OG0007745, OG0003480, OG0016997, OG0002668, OG0004872, OG0006118, OG0004842, OG0001572, OG0003048, OG0024547, OG0002201, OG0007114, OG0011718, OG0006100, OG0003574, OG0000978, OG0009485, OG0009587, OG0000359, OG0000273, OG0009091, OG0005524, OG0002083, OG0005898, OG0007424, OG0004527, OG0001953, OG0000781, OG0007836, OG0006212, OG0000056, OG0008598, OG0047335, OG0047313, OG0013674, OG0007048, OG0047339, OG0005651, OG0009896, OG0000818, OG0000777, OG0006678, OG0007601, OG0000311, OG0003567, OG0006566, OG0002902, OG0005701, OG0001883, OG0008350, OG0002724, OG0002433, OG0007977, OG0001776, OG0006070, OG0015528, OG0033109, OG0002234, OG0017003, OG0003356, OG0005395, OG0008588, OG0005831, OG0000297, OG0032781, OG0004405, OG0004125, OG0004504, OG0002602, OG0012844, OG0002090, OG0005208, OG0047325, OG0007019, OG0000046, OG0004252, OG0008577, OG0004738, OG0007479, OG0004883, OG0007801, OG0002286, OG0006642, OG0000623, OG0002228, OG0000083, OG0000431, OG0008254, OG0004340, OG0004605, OG0005134, OG0011055, OG0002888, OG0002666, OG0004559, OG0001452, OG0013656, OG0003330, OG0006243, OG0015166, OG0003854, OG0007457, OG0008252, OG0005752, OG0026896, OG0000573, OG0010209, OG0008227, OG0011694, OG0005583, OG0001136, OG0047622, OG0009935, OG0008250, OG0011241, OG0014001, OG0004270, OG0008302, OG0023995, OG0001030, OG0015805, OG0006770, OG0003115, OG0011774, OG0002042, OG0006015, OG0011635, OG0002246, OG0020445, OG0003239, OG0004477, OG0002295, OG0005824, OG0004960, OG0014681, OG0033045, OG0002853, OG0009611, OG0001768, OG0008875, OG0003820, OG0003470, OG0047628, OG0001031, OG0004311, OG0000679, OG0006302, OG0001503, OG0008016, OG0001728, OG0026199, OG0026211, OG0007176, OG0009633, OG0007058, OG0010251, OG0047818, OG0000183, OG0008581, OG0003390, OG0007097, OG0003266, OG0000242, OG0001194, OG0047794, OG0009580, OG0004944, OG0002490, OG0005429, OG0007808, OG0000858, OG0015744, OG0008394, OG0001495, OG0007928, OG0001632, OG0005475, OG0006342, OG0002750, OG0001079, OG0007469, OG0006297, OG0002756, OG0006322, OG0005937, OG0004349, OG0003666, OG0008094, OG0009872, OG0011294, OG0000774, OG0000360, OG0006550, OG0001270, OG0004547, OG0005600, OG0007516, OG0009314, OG0014584, OG0014695, OG0000536, OG0017189, OG0004244, OG0008864, OG0002715, OG0006933, OG0005086, OG0003265, OG0003441, OG0008011, OG0000861, OG0001247, OG0003447, OG0047966, OG0001852, OG0003514, OG0007909, OG0033353, OG0000664, OG0010130, OG0003842, OG0021853, OG0004621, OG0005659, OG0002155, OG0002973, OG0000097, OG0021836, OG0003358, OG0006997, OG0002989, OG0005786, OG0001356, OG0006676, OG0005568, OG0001369, OG0005599, OG0000415, OG0002986, OG0005772, OG0007610, OG0000790, OG0001663, OG0018205, OG0001232, OG0001317, OG0002209, OG0014490, OG0000456, OG0001643, OG0047723, OG0006053, OG0002545, OG0024464, OG0005625, OG0007170, OG0003611, OG0009430, OG0010930, OG0000601, OG0006363, OG0007778, OG0006167, OG0006982, OG0003320, OG0003368, OG0001378, OG0007823, OG0002565, OG0003554, OG0000850, OG0004343, OG0008381, OG0016407, OG0005955, OG0004459, OG0003948, OG0005195, OG0009666, OG0000282, OG0002235, OG0007732, OG0005603, OG0008301, OG0006890, OG0003177, OG0009157, OG0008222, OG0003548, OG0007649, OG0002312, OG0010914, OG0004245, OG0001606, OG0009174, OG0047591, OG0004362, OG0009584, OG0007347, OG0008644, OG0003147, OG0001798, OG0002084, OG0000298, OG0001756, OG0002321, OG0016513, OG0006119, OG0005119, OG0047607, OG0001510, OG0006679, OG0008698, OG0008320, OG0003863, OG0005836, OG0000662, OG0006919, OG0011702, OG0002285, OG0009813, OG0001627, OG0006250, OG0047614, OG0011692, OG0009451, OG0008364, OG0002737, OG0047745, OG0000586, OG0026193, OG0006614, OG0019017, OG0001361, OG0003778, OG0004824, OG0000135, OG0004294, OG0012241, OG0011367, OG0009112, OG0000300, OG0016416, OG0010518, OG0011596, OG0007074, OG0001023, OG0007612, OG0002994, OG0004746, OG0007219, OG0000872, OG0013589
## 4 OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0000219, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000685, OG0000054, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0000250, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0000230, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0000045, OG0003013, OG0048110, OG0048111, OG0047319, OG0000879, OG0007188, OG0003847, OG0010448, OG0000352, OG0006974, OG0002646, OG0008414, OG0000082, OG0001127, OG0006264, OG0000534, OG0001181, OG0001082, OG0000575, OG0006609, OG0003772, OG0026859, OG0033389, OG0006615, OG0006232, OG0008054, OG0007774, OG0000116, OG0011706, OG0048097, OG0008815, OG0007339, OG0000119, OG0007647, OG0033387, OG0004377, OG0009082, OG0003543, OG0009102, OG0004060, OG0004521, OG0001608, OG0004226, OG0007300, OG0017602, OG0011272, OG0000077, OG0015159, OG0005372, OG0003676, OG0004786, OG0003699, OG0004144, OG0006545, OG0001316, OG0010641, OG0000048, OG0001419, OG0003900, OG0001559, OG0006125, OG0004041, OG0001279, OG0008602, OG0003998, OG0001741, OG0005614, OG0047286, OG0001188, OG0008569, OG0005822, OG0009620, OG0000239, OG0005465, OG0006172, OG0047260, OG0005633, OG0004692, OG0007653, OG0005613, OG0002487, OG0010542, OG0008027, OG0001903, OG0007461, OG0002639, OG0009150, OG0002368, OG0003360, OG0014112, OG0004751, OG0006353, OG0002028, OG0017239, OG0008422, OG0000257, OG0009058, OG0000363, OG0006385, OG0026085, OG0009475, OG0003471, OG0002875, OG0000014, OG0004884, OG0003435, OG0006849, OG0005055, OG0006149, OG0010827, OG0000724, OG0005079, OG0000128, OG0005270, OG0000391, OG0004907, OG0009724, OG0005699, OG0000696, OG0008567, OG0004202, OG0004184, OG0008673, OG0007817, OG0002761, OG0000102, OG0007314, OG0007541, OG0002376, OG0005124, OG0001018, OG0002722, OG0000548, OG0003135, OG0006225, OG0006001, OG0004644, OG0020520, OG0003004, OG0002975, OG0001673, OG0000124, OG0004407, OG0002103, OG0007177, OG0006747, OG0007277, OG0008649, OG0009723, OG0013721, OG0000312, OG0047278, OG0007309, OG0018375, OG0006373, OG0005175, OG0008311, OG0010226, OG0011256, OG0007335, OG0007450, OG0003292, OG0001490, OG0012810, OG0006136, OG0001177, OG0000429, OG0004645, OG0012872, OG0003625, OG0003859, OG0008028, OG0008767, OG0013481, OG0000121, OG0005439, OG0033134, OG0010155, OG0008658, OG0000288, OG0004082, OG0047398, OG0007304, OG0003340, OG0005283, OG0004209, OG0002414, OG0047402, OG0004014, OG0000994, OG0004228, OG0001103, OG0006259, OG0018867, OG0001463, OG0009125, OG0021810, OG0003365, OG0009396, OG0000279, OG0008580, OG0000185, OG0017301, OG0018987, OG0047412, OG0000037, OG0002267, OG0003855, OG0008809, OG0000676, OG0004757, OG0002835, OG0001278, OG0003370, OG0010568, OG0000325, OG0007080, OG0000175, OG0001199, OG0000527, OG0004572, OG0003679, OG0003309, OG0001344, OG0008651, OG0047742, OG0001439, OG0000214, OG0033031, OG0011442, OG0000020, OG0010154, OG0019411, OG0001722, OG0010333, OG0006702, OG0020483, OG0003670, OG0005445, OG0008682, OG0019322, OG0009216, OG0002410, OG0002740, OG0007691, OG0003536, OG0005512, OG0026163, OG0007183, OG0047882, OG0033329, OG0000341, OG0018008, OG0015529, OG0013558, OG0008510, OG0003885, OG0005950, OG0007317, OG0001857, OG0004731, OG0001864, OG0000317, OG0006379, OG0005677, OG0000434, OG0005045, OG0004942, OG0012249, OG0000247, OG0001016, OG0005855, OG0001159, OG0000293, OG0001211, OG0010890, OG0047706, OG0001753, OG0033238, OG0000031, OG0010107, OG0047708, OG0047709, OG0008009, OG0004375, OG0018953, OG0014657, OG0000567, OG0003158, OG0047115, OG0000016, OG0006138, OG0007042, OG0005590, OG0007827, OG0007496, OG0001661, OG0003284, OG0000523, OG0008305, OG0026053, OG0004616, OG0000390, OG0011708, OG0004622, OG0001656, OG0001328, OG0002912, OG0001400, OG0047159, OG0001633, OG0007495, OG0018083, OG0001551, OG0003005, OG0003702, OG0005150, OG0007667, OG0009675, OG0002531, OG0007981, OG0005173, OG0002555, OG0006338, OG0009164, OG0006572, OG0005837, OG0006199, OG0047280, OG0002435, OG0007968, OG0000477, OG0010610, OG0000780, OG0007392, OG0000113, OG0006003, OG0001252, OG0001730, OG0033167, OG0003507, OG0008760, OG0002193, OG0001235, OG0005900, OG0001625, OG0005506, OG0019476, OG0033376, OG0026262, OG0019029, OG0000810, OG0009335, OG0004160, OG0007119, OG0000109, OG0005144, OG0009421, OG0001670, OG0000925, OG0008519, OG0005294, OG0001986, OG0048045, OG0026170, OG0000392, OG0002164, OG0015720, OG0000732, OG0006106, OG0009092, OG0033373, OG0006316, OG0016075, OG0007793, OG0011977, OG0004860, OG0048067, OG0008872, OG0000066, OG0002754, OG0005191, OG0000111, OG0010545, OG0006341, OG0048068, OG0007795, OG0005277, OG0006876, OG0007847, OG0007509, OG0004389, OG0009293, OG0002789, OG0013604, OG0000588, OG0002502, OG0001337, OG0000067, OG0002562, OG0000130, OG0021764, OG0047671, OG0002224, OG0000972, OG0001676, OG0017364, OG0009816, OG0002212, OG0008876, OG0001858, OG0012114, OG0006990, OG0001087, OG0000400, OG0015679, OG0047676, OG0047677, OG0047678, OG0015693, OG0001360, OG0010193, OG0000727, OG0002359, OG0004296, OG0002196, OG0001493, OG0007075, OG0003388, OG0003813, OG0033230, OG0002655, OG0000316, OG0001936, OG0000218, OG0003383, OG0009424, OG0007220, OG0003492, OG0001820, OG0006276, OG0003355, OG0000063, OG0000034, OG0009824, OG0021840, OG0010181, OG0000188, OG0009152, OG0002153, OG0003176, OG0008857, OG0004921, OG0007661, OG0005766, OG0009135, OG0005142, OG0005895, OG0000326, OG0006745, OG0003716, OG0000313, OG0007338, OG0002948, OG0005242, OG0001404, OG0006683, OG0003925, OG0015535, OG0013496, OG0005418, OG0011721, OG0002779, OG0008547, OG0008079, OG0000953, OG0026255, OG0007122, OG0004121, OG0002522, OG0013239, OG0025898, OG0018068, OG0002058, OG0007806, OG0000572, OG0011766, OG0001960, OG0003926, OG0011111, OG0002418, OG0006983, OG0004808, OG0001869, OG0011654, OG0000894, OG0000681, OG0001410, OG0005750, OG0000997, OG0002712, OG0018973, OG0000337, OG0002537, OG0012840, OG0006537, OG0019357, OG0018162, OG0001233, OG0001287, OG0004402, OG0008328, OG0001704, OG0007006, OG0007044, OG0021812, OG0008075, OG0010104, OG0021772, OG0011698, OG0011672, OG0000310, OG0016436, OG0000007, OG0001871, OG0002401, OG0008977, OG0000322, OG0007452, OG0047857, OG0005570, OG0006668, OG0000019, OG0047860, OG0031954, OG0004707, OG0006365, OG0004587, OG0006881, OG0007298, OG0008432, OG0002622, OG0002095, OG0009165, OG0005423, OG0003157, OG0007800, OG0026226, OG0001519, OG0003294, OG0013488, OG0033314, OG0007010, OG0004697, OG0011168, OG0003953, OG0004781, OG0007628, OG0008043, OG0047849, OG0019213, OG0003011, OG0017282, OG0001186, OG0005609, OG0007929, OG0006262, OG0005135, OG0047448, OG0004482, OG0005245, OG0001396, OG0012225, OG0001095, OG0000895, OG0001956, OG0047453, OG0000406, OG0010920, OG0005235, OG0003884, OG0004471, OG0005272, OG0002452, OG0016427, OG0003481, OG0010861, OG0000848, OG0005979, OG0000006, OG0003134, OG0004758, OG0000142, OG0002517, OG0002149, OG0005413, OG0015531, OG0005412, OG0007633, OG0005383, OG0004628, OG0006165, OG0007527, OG0002787, OG0002491, OG0001666, OG0004403, OG0001678, OG0002336, OG0000619, OG0001790, OG0004627, OG0008280, OG0011759, OG0001584, OG0047486, OG0000011, OG0007089, OG0001555, OG0001747, OG0047488, OG0002725, OG0002459, OG0008866, OG0005373, OG0005007, OG0000084, OG0000948, OG0007773, OG0008257, OG0001139, OG0002998, OG0006993, OG0004803, OG0002403, OG0001511, OG0001719, OG0000731, OG0000364, OG0008323, OG0005795, OG0007497, OG0007400, OG0000256, OG0003054, OG0047520, OG0047499, OG0001401, OG0007070, OG0023006, OG0005714, OG0001001, OG0006094, OG0009043, OG0006256, OG0026187, OG0000213, OG0001496, OG0033243, OG0047087, OG0005103, OG0006389, OG0000137, OG0010223, OG0014825, OG0002293, OG0000209, OG0002841, OG0005040, OG0012719, OG0000090, OG0005448, OG0000716, OG0012716, OG0002063, OG0013613, OG0026025, OG0006387, OG0007672, OG0000040, OG0001668, OG0014127, OG0003189, OG0002629, OG0006960, OG0002879, OG0000638, OG0004820, OG0007399, OG0002499, OG0001780, OG0000074, OG0033032, OG0002135, OG0001170, OG0008595, OG0008275, OG0001554, OG0002685, OG0006694, OG0011208, OG0007284, OG0003549, OG0047110, OG0007848, OG0000890, OG0000909, OG0009839, OG0047086, OG0011032, OG0033127, OG0002022, OG0001306, OG0006686, OG0019509, OG0001412, OG0003376, OG0000254, OG0001613, OG0048026, OG0002656, OG0012829, OG0016442, OG0004935, OG0001743, OG0004710, OG0002070, OG0008317, OG0003557, OG0001314, OG0004345, OG0001802, OG0000453, OG0000064, OG0007660, OG0009093, OG0001305, OG0007155, OG0008318, OG0017006, OG0000529, OG0003210, OG0018984, OG0003868, OG0003036, OG0013770, OG0000412, OG0000236, OG0007329, OG0000151, OG0009658, OG0003737, OG0002318, OG0009568, OG0005974, OG0009129, OG0000574, OG0006376, OG0006570, OG0005522, OG0008947, OG0009168, OG0005919, OG0002628, OG0002751, OG0002217, OG0000592, OG0006987, OG0009182, OG0004909, OG0007239, OG0002855, OG0008276, OG0001571, OG0005201, OG0007417, OG0013029, OG0006908, OG0002508, OG0000201, OG0007820, OG0007316, OG0003872, OG0005857, OG0007487, OG0000323, OG0004514, OG0001582, OG0001220, OG0007736, OG0001914, OG0009544, OG0006308, OG0008524, OG0005488, OG0002799, OG0001451, OG0005377, OG0047192, OG0008284, OG0005816, OG0003128, OG0003387, OG0005815, OG0009565, OG0008411, OG0006634, OG0001525, OG0002479, OG0005915, OG0008870, OG0004776, OG0000721, OG0001799, OG0047174, OG0005321, OG0009411, OG0008074, OG0002297, OG0010956, OG0009571, OG0003639, OG0003291, OG0000344, OG0002344, OG0009582, OG0002211, OG0000943, OG0000643, OG0006604, OG0009180, OG0008837, OG0001164, OG0002728, OG0004988, OG0005535, OG0000800, OG0000168, OG0047166, OG0007775, OG0004789, OG0000847, OG0008797, OG0003927, OG0004788, OG0002166, OG0004995, OG0009195, OG0004914, OG0006096, OG0006010, OG0001720, OG0033075, OG0012827, OG0000241, OG0001216, OG0001234, OG0008046, OG0004903, OG0000402, OG0003371, OG0011266, OG0007243, OG0002354, OG0003251, OG0004216, OG0002908, OG0007324, OG0006513, OG0003769, OG0019446, OG0004460, OG0002034, OG0007253, OG0006180, OG0002590, OG0011764, OG0004312, OG0007111, OG0012858, OG0047245, OG0000612, OG0034480, OG0001487, OG0009140, OG0000115, OG0011207, OG0001405, OG0008496, OG0000546, OG0002461, OG0012180, OG0002421, OG0002716, OG0001868, OG0000235, OG0006098, OG0008861, OG0007160, OG0007745, OG0003480, OG0016997, OG0002668, OG0004872, OG0006118, OG0004842, OG0001572, OG0003048, OG0024547, OG0002201, OG0007114, OG0011718, OG0006100, OG0003574, OG0000978, OG0009485, OG0009587, OG0000359, OG0000273, OG0009091, OG0005524, OG0002083, OG0005898, OG0007424, OG0004527, OG0001953, OG0008389, OG0000781, OG0007836, OG0006212, OG0000056, OG0008598, OG0047335, OG0047313, OG0013674, OG0007048, OG0047339, OG0005651, OG0009896, OG0000818, OG0000777, OG0006678, OG0007601, OG0000311, OG0003567, OG0006566, OG0002902, OG0005701, OG0001883, OG0008350, OG0002724, OG0002433, OG0007977, OG0001776, OG0006070, OG0015528, OG0033109, OG0002234, OG0017003, OG0003356, OG0005395, OG0008588, OG0005831, OG0000297, OG0032781, OG0004405, OG0004125, OG0004504, OG0002602, OG0012844, OG0002090, OG0005208, OG0047325, OG0007019, OG0000046, OG0004252, OG0008577, OG0004738, OG0007479, OG0004883, OG0007801, OG0002286, OG0006642, OG0000623, OG0002228, OG0000083, OG0000431, OG0000159, OG0008254, OG0004340, OG0004605, OG0005134, OG0011055, OG0002888, OG0002666, OG0004559, OG0001452, OG0013656, OG0003330, OG0006243, OG0015166, OG0003854, OG0007457, OG0008252, OG0005752, OG0026896, OG0000573, OG0010209, OG0008227, OG0011694, OG0005583, OG0001136, OG0047622, OG0009935, OG0008250, OG0011241, OG0014001, OG0001614, OG0004270, OG0008302, OG0023995, OG0001030, OG0015805, OG0006770, OG0003115, OG0011774, OG0002042, OG0006015, OG0011635, OG0002246, OG0020445, OG0003239, OG0004477, OG0002295, OG0005824, OG0004960, OG0014681, OG0033045, OG0002853, OG0009611, OG0001768, OG0008875, OG0003820, OG0003470, OG0047628, OG0001031, OG0004311, OG0000679, OG0006302, OG0001503, OG0008016, OG0001728, OG0026199, OG0026211, OG0007176, OG0009633, OG0007058, OG0010251, OG0047818, OG0000183, OG0008581, OG0003390, OG0007097, OG0003266, OG0000242, OG0001194, OG0047794, OG0009580, OG0004944, OG0002490, OG0005429, OG0007808, OG0000858, OG0015744, OG0008394, OG0001495, OG0007928, OG0001632, OG0005475, OG0006342, OG0002750, OG0001079, OG0007469, OG0006297, OG0002756, OG0006322, OG0005937, OG0004349, OG0003666, OG0008094, OG0009872, OG0011294, OG0000774, OG0000360, OG0006550, OG0001270, OG0004547, OG0005600, OG0007516, OG0009314, OG0014584, OG0014695, OG0000536, OG0017189, OG0004244, OG0008864, OG0002715, OG0006933, OG0005086, OG0003265, OG0003441, OG0008011, OG0000861, OG0001247, OG0003447, OG0047966, OG0001852, OG0003514, OG0007909, OG0033353, OG0000664, OG0010130, OG0003842, OG0021853, OG0004621, OG0005659, OG0002155, OG0002973, OG0000097, OG0021836, OG0003358, OG0006997, OG0002989, OG0005786, OG0001356, OG0006676, OG0005568, OG0001369, OG0005599, OG0000415, OG0002986, OG0005772, OG0007610, OG0000790, OG0001663, OG0018205, OG0001317, OG0002209, OG0014490, OG0000456, OG0001643, OG0047723, OG0006053, OG0002545, OG0024464, OG0005625, OG0007170, OG0003611, OG0009430, OG0010930, OG0000601, OG0006363, OG0007778, OG0006167, OG0006982, OG0003320, OG0003368, OG0001378, OG0007823, OG0002565, OG0003554, OG0000850, OG0004343, OG0008381, OG0016407, OG0005955, OG0004459, OG0003948, OG0005195, OG0009666, OG0000282, OG0002235, OG0007732, OG0005603, OG0008301, OG0006890, OG0003177, OG0009157, OG0008222, OG0003548, OG0007649, OG0002312, OG0010914, OG0004245, OG0001606, OG0009174, OG0047591, OG0004362, OG0009584, OG0007347, OG0008644, OG0003147, OG0001798, OG0002084, OG0000298, OG0001756, OG0002321, OG0016513, OG0006119, OG0005119, OG0047607, OG0001510, OG0006679, OG0008698, OG0008320, OG0003863, OG0005836, OG0000662, OG0006919, OG0011702, OG0002285, OG0009813, OG0001627, OG0006250, OG0047614, OG0011692, OG0009451, OG0008364, OG0002737, OG0047745, OG0000586, OG0026193, OG0006614, OG0019017, OG0001361, OG0003778, OG0004824, OG0000135, OG0004294, OG0012241, OG0011367, OG0009112, OG0000300, OG0016416, OG0010518, OG0011596, OG0007074, OG0001023, OG0007612, OG0002994, OG0004746, OG0007219, OG0000872, OG0013589
## 5                                                                              OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000054, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0000250, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0000230, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0000045, OG0003013, OG0048110, OG0048111, OG0047319, OG0007188, OG0003847, OG0010448, OG0006974, OG0002646, OG0008414, OG0000082, OG0001127, OG0006264, OG0000534, OG0001181, OG0001082, OG0000575, OG0006609, OG0003772, OG0026859, OG0033389, OG0006615, OG0006232, OG0008054, OG0007774, OG0000116, OG0011706, OG0048097, OG0008815, OG0007339, OG0000119, OG0007647, OG0033387, OG0004377, OG0009082, OG0003543, OG0009102, OG0004060, OG0004521, OG0001608, OG0004226, OG0007300, OG0017602, OG0011272, OG0000077, OG0015159, OG0005372, OG0003676, OG0004786, OG0003699, OG0004144, OG0006545, OG0001316, OG0010641, OG0000048, OG0001419, OG0003900, OG0001559, OG0006125, OG0004041, OG0001279, OG0008602, OG0003998, OG0001741, OG0005614, OG0047286, OG0001188, OG0008569, OG0005822, OG0009620, OG0000239, OG0005465, OG0006172, OG0047260, OG0005633, OG0004692, OG0007653, OG0005613, OG0002487, OG0010542, OG0008027, OG0001903, OG0007461, OG0002639, OG0009150, OG0002368, OG0003360, OG0014112, OG0004751, OG0006353, OG0002028, OG0017239, OG0008422, OG0000257, OG0009058, OG0000363, OG0006385, OG0026085, OG0009475, OG0003471, OG0002875, OG0000014, OG0004884, OG0003435, OG0006849, OG0005055, OG0006149, OG0010827, OG0000724, OG0005079, OG0000128, OG0005270, OG0000391, OG0004907, OG0009724, OG0005699, OG0000696, OG0008567, OG0004202, OG0004184, OG0008673, OG0007817, OG0002761, OG0000102, OG0007314, OG0007541, OG0002376, OG0005124, OG0001018, OG0002722, OG0000548, OG0003135, OG0006225, OG0006001, OG0004644, OG0020520, OG0003004, OG0002975, OG0001673, OG0000124, OG0004407, OG0002103, OG0007177, OG0006747, OG0007277, OG0008649, OG0009723, OG0013721, OG0000312, OG0047278, OG0007309, OG0018375, OG0006373, OG0005175, OG0008311, OG0010226, OG0011256, OG0007335, OG0007450, OG0003292, OG0001490, OG0012810, OG0006136, OG0001177, OG0000429, OG0004645, OG0012872, OG0003625, OG0003859, OG0008028, OG0008767, OG0013481, OG0000121, OG0005439, OG0033134, OG0010155, OG0008658, OG0000288, OG0004082, OG0047398, OG0007304, OG0003340, OG0005283, OG0004209, OG0002414, OG0047402, OG0004014, OG0000994, OG0004228, OG0001103, OG0006259, OG0018867, OG0001463, OG0009125, OG0021810, OG0003365, OG0009396, OG0000279, OG0008580, OG0000185, OG0017301, OG0018987, OG0047412, OG0000037, OG0002267, OG0003855, OG0008809, OG0000676, OG0004757, OG0002835, OG0001278, OG0003370, OG0010568, OG0000325, OG0007080, OG0000175, OG0001199, OG0000527, OG0004572, OG0003679, OG0003309, OG0001344, OG0008651, OG0047742, OG0001439, OG0000214, OG0033031, OG0011442, OG0000020, OG0010154, OG0019411, OG0001722, OG0010333, OG0006702, OG0020483, OG0003670, OG0005445, OG0008682, OG0019322, OG0009216, OG0002410, OG0002740, OG0007691, OG0003536, OG0005512, OG0026163, OG0007183, OG0047882, OG0033329, OG0000341, OG0018008, OG0015529, OG0013558, OG0008510, OG0003885, OG0005950, OG0007317, OG0001857, OG0004731, OG0001864, OG0000317, OG0006379, OG0005677, OG0000434, OG0005045, OG0004942, OG0012249, OG0000247, OG0001016, OG0005855, OG0001159, OG0000293, OG0001211, OG0010890, OG0047706, OG0001753, OG0033238, OG0000031, OG0010107, OG0047708, OG0047709, OG0008009, OG0004375, OG0018953, OG0014657, OG0000567, OG0003158, OG0047115, OG0006138, OG0007042, OG0005590, OG0007827, OG0007496, OG0001661, OG0003284, OG0000523, OG0008305, OG0026053, OG0004616, OG0000390, OG0011708, OG0004622, OG0001656, OG0001328, OG0002912, OG0001400, OG0047159, OG0001633, OG0007495, OG0018083, OG0001551, OG0003005, OG0003702, OG0005150, OG0007667, OG0009675, OG0002531, OG0007981, OG0005173, OG0002555, OG0006338, OG0009164, OG0006572, OG0005837, OG0006199, OG0047280, OG0002435, OG0007968, OG0000477, OG0010610, OG0000780, OG0007392, OG0000113, OG0006003, OG0001252, OG0001730, OG0033167, OG0003507, OG0008760, OG0002193, OG0001235, OG0005900, OG0001625, OG0005506, OG0019476, OG0033376, OG0026262, OG0019029, OG0000810, OG0009335, OG0004160, OG0007119, OG0000109, OG0005144, OG0009421, OG0001670, OG0000925, OG0008519, OG0005294, OG0001986, OG0048045, OG0026170, OG0000392, OG0002164, OG0015720, OG0000732, OG0006106, OG0009092, OG0033373, OG0006316, OG0016075, OG0007793, OG0011977, OG0004860, OG0048067, OG0008872, OG0000066, OG0002754, OG0005191, OG0000111, OG0010545, OG0006341, OG0048068, OG0007795, OG0005277, OG0006876, OG0007847, OG0007509, OG0004389, OG0009293, OG0002789, OG0013604, OG0000588, OG0002502, OG0001337, OG0000067, OG0002562, OG0000130, OG0021764, OG0000152, OG0047671, OG0002224, OG0000972, OG0001676, OG0017364, OG0009816, OG0002212, OG0008876, OG0001858, OG0012114, OG0006990, OG0001087, OG0000400, OG0015679, OG0047676, OG0047677, OG0047678, OG0015693, OG0001360, OG0010193, OG0000727, OG0002359, OG0004296, OG0002196, OG0001493, OG0007075, OG0003388, OG0003813, OG0033230, OG0002655, OG0000316, OG0001936, OG0000218, OG0003383, OG0009424, OG0007220, OG0003492, OG0001820, OG0006276, OG0003355, OG0000063, OG0000034, OG0009824, OG0021840, OG0010181, OG0000188, OG0009152, OG0002153, OG0003176, OG0008857, OG0004921, OG0007661, OG0005766, OG0009135, OG0005142, OG0005895, OG0000326, OG0006745, OG0003716, OG0000313, OG0007338, OG0002948, OG0005242, OG0001404, OG0006683, OG0003925, OG0015535, OG0013496, OG0005418, OG0011721, OG0002779, OG0008547, OG0008079, OG0000953, OG0026255, OG0007122, OG0004121, OG0002522, OG0013239, OG0025898, OG0018068, OG0002058, OG0007806, OG0000572, OG0011766, OG0001960, OG0003926, OG0011111, OG0002418, OG0006983, OG0004808, OG0001869, OG0011654, OG0000894, OG0000681, OG0001410, OG0005750, OG0000997, OG0002712, OG0018973, OG0000337, OG0002537, OG0012840, OG0006537, OG0019357, OG0018162, OG0001233, OG0001287, OG0004402, OG0008328, OG0001704, OG0007006, OG0007044, OG0021812, OG0008075, OG0010104, OG0021772, OG0011698, OG0011672, OG0000310, OG0016436, OG0000007, OG0001871, OG0002401, OG0008977, OG0000322, OG0007452, OG0047857, OG0005570, OG0006668, OG0047860, OG0031954, OG0004707, OG0006365, OG0004587, OG0006881, OG0007298, OG0008432, OG0002622, OG0002095, OG0009165, OG0005423, OG0003157, OG0007800, OG0026226, OG0001519, OG0003294, OG0013488, OG0033314, OG0007010, OG0004697, OG0011168, OG0003953, OG0004781, OG0007628, OG0008043, OG0047849, OG0019213, OG0003011, OG0017282, OG0001186, OG0005609, OG0007929, OG0006262, OG0005135, OG0047448, OG0004482, OG0005245, OG0001396, OG0012225, OG0001095, OG0000895, OG0001956, OG0047453, OG0000406, OG0010920, OG0005235, OG0003884, OG0004471, OG0005272, OG0002452, OG0016427, OG0003481, OG0010861, OG0000848, OG0005979, OG0003134, OG0004758, OG0000142, OG0002517, OG0002149, OG0005413, OG0015531, OG0005412, OG0007633, OG0005383, OG0004628, OG0006165, OG0007527, OG0002787, OG0002491, OG0001666, OG0004403, OG0001678, OG0002336, OG0000619, OG0001790, OG0004627, OG0008280, OG0011759, OG0001584, OG0047486, OG0000011, OG0007089, OG0001555, OG0001747, OG0047488, OG0002725, OG0002459, OG0008866, OG0005373, OG0005007, OG0000084, OG0000948, OG0007773, OG0008257, OG0001139, OG0002998, OG0006993, OG0003047, OG0004803, OG0002403, OG0001511, OG0000731, OG0000364, OG0008323, OG0005795, OG0007497, OG0007400, OG0000256, OG0003054, OG0047520, OG0047499, OG0001401, OG0007070, OG0023006, OG0005714, OG0001001, OG0006094, OG0009043, OG0006256, OG0026187, OG0000213, OG0001496, OG0033243, OG0047087, OG0005103, OG0006389, OG0000137, OG0010223, OG0014825, OG0002293, OG0000209, OG0002841, OG0005040, OG0012719, OG0000090, OG0005448, OG0000716, OG0012716, OG0002063, OG0013613, OG0026025, OG0006387, OG0007672, OG0000040, OG0001668, OG0014127, OG0003189, OG0002629, OG0006960, OG0002879, OG0000638, OG0004820, OG0007399, OG0002499, OG0001780, OG0000074, OG0033032, OG0002135, OG0001170, OG0008595, OG0008275, OG0001554, OG0002685, OG0006694, OG0011208, OG0007284, OG0003549, OG0047110, OG0007848, OG0000890, OG0000909, OG0009839, OG0047086, OG0011032, OG0033127, OG0002022, OG0001306, OG0006686, OG0019509, OG0001412, OG0003376, OG0000254, OG0001613, OG0048026, OG0002656, OG0012829, OG0016442, OG0004935, OG0001743, OG0004710, OG0002070, OG0008317, OG0003557, OG0001314, OG0004345, OG0001802, OG0000453, OG0000064, OG0007660, OG0009093, OG0001305, OG0007155, OG0008318, OG0017006, OG0000529, OG0003210, OG0018984, OG0003868, OG0003036, OG0013770, OG0000412, OG0000236, OG0007329, OG0000151, OG0009658, OG0003737, OG0002318, OG0009568, OG0005974, OG0009129, OG0000574, OG0006376, OG0006570, OG0005522, OG0008947, OG0009168, OG0005919, OG0002628, OG0002751, OG0002217, OG0000592, OG0006987, OG0009182, OG0004909, OG0007239, OG0002855, OG0008276, OG0001571, OG0005201, OG0007417, OG0013029, OG0006908, OG0002508, OG0000201, OG0007820, OG0007316, OG0003872, OG0005857, OG0007487, OG0000323, OG0004514, OG0001582, OG0001220, OG0007736, OG0001914, OG0009544, OG0006308, OG0008524, OG0005488, OG0002799, OG0001451, OG0005377, OG0047192, OG0008284, OG0005816, OG0003128, OG0003387, OG0005815, OG0007478, OG0009565, OG0008411, OG0006634, OG0001525, OG0002479, OG0005915, OG0008870, OG0004776, OG0000721, OG0001799, OG0047174, OG0005321, OG0009411, OG0008074, OG0002297, OG0010956, OG0009571, OG0003639, OG0003291, OG0000344, OG0002344, OG0009582, OG0002211, OG0000943, OG0000643, OG0006604, OG0009180, OG0008837, OG0001164, OG0002728, OG0004988, OG0005535, OG0000800, OG0000168, OG0047166, OG0007775, OG0004789, OG0000847, OG0008797, OG0003927, OG0004788, OG0002166, OG0004995, OG0009195, OG0004914, OG0006096, OG0006010, OG0001720, OG0033075, OG0012827, OG0000241, OG0001216, OG0001234, OG0008046, OG0004903, OG0000402, OG0003371, OG0011266, OG0007243, OG0002354, OG0003251, OG0004216, OG0002908, OG0007324, OG0006513, OG0003769, OG0019446, OG0004460, OG0002034, OG0007253, OG0006180, OG0002590, OG0011764, OG0004312, OG0007111, OG0012858, OG0047245, OG0000612, OG0034480, OG0001487, OG0009140, OG0000115, OG0011207, OG0001405, OG0008496, OG0000546, OG0002461, OG0012180, OG0002421, OG0002716, OG0001868, OG0000235, OG0006098, OG0008861, OG0007160, OG0007745, OG0003480, OG0016997, OG0002668, OG0004872, OG0006118, OG0004842, OG0001572, OG0003048, OG0024547, OG0002201, OG0007114, OG0011718, OG0006100, OG0003574, OG0000978, OG0009485, OG0009587, OG0000359, OG0000273, OG0009091, OG0005524, OG0002083, OG0005898, OG0007424, OG0004527, OG0001953, OG0008389, OG0000781, OG0007836, OG0006212, OG0008598, OG0047335, OG0047313, OG0013674, OG0007048, OG0047339, OG0005651, OG0009896, OG0000818, OG0006678, OG0007601, OG0000311, OG0003567, OG0006566, OG0002902, OG0005701, OG0001883, OG0008350, OG0002724, OG0002433, OG0007977, OG0001776, OG0006070, OG0015528, OG0033109, OG0002234, OG0017003, OG0003356, OG0005395, OG0008588, OG0005831, OG0032781, OG0004405, OG0004125, OG0004504, OG0002602, OG0012844, OG0002090, OG0005208, OG0047325, OG0007019, OG0000046, OG0004252, OG0008577, OG0004738, OG0007479, OG0004883, OG0007801, OG0002286, OG0006642, OG0000623, OG0002228, OG0000083, OG0000431, OG0000159, OG0008254, OG0004340, OG0004605, OG0005134, OG0011055, OG0002888, OG0002666, OG0004559, OG0001452, OG0013656, OG0003330, OG0006243, OG0015166, OG0003854, OG0007457, OG0008252, OG0005752, OG0026896, OG0000573, OG0010209, OG0008227, OG0011694, OG0005583, OG0001136, OG0047622, OG0009935, OG0008250, OG0011241, OG0014001, OG0001614, OG0004270, OG0008302, OG0023995, OG0001030, OG0015805, OG0006770, OG0003115, OG0011774, OG0002042, OG0006015, OG0011635, OG0002246, OG0020445, OG0003239, OG0004477, OG0002295, OG0005824, OG0004960, OG0014681, OG0033045, OG0002853, OG0009611, OG0001768, OG0008875, OG0003820, OG0003470, OG0047628, OG0001031, OG0004311, OG0000679, OG0006302, OG0001503, OG0008016, OG0001728, OG0026199, OG0026211, OG0007176, OG0009633, OG0007058, OG0010251, OG0047818, OG0000183, OG0008581, OG0003390, OG0007097, OG0003266, OG0000242, OG0001194, OG0047794, OG0009580, OG0004944, OG0002490, OG0005429, OG0007808, OG0000858, OG0015744, OG0008394, OG0001495, OG0007928, OG0001632, OG0005475, OG0006342, OG0002750, OG0001079, OG0007469, OG0006297, OG0002756, OG0006322, OG0005937, OG0004349, OG0003666, OG0008094, OG0009872, OG0011294, OG0000774, OG0000360, OG0006550, OG0001270, OG0004547, OG0005600, OG0007516, OG0009314, OG0014584, OG0014695, OG0000536, OG0017189, OG0004244, OG0008864, OG0002715, OG0006933, OG0005086, OG0003265, OG0003441, OG0008011, OG0000861, OG0001247, OG0003447, OG0047966, OG0001852, OG0003514, OG0007909, OG0033353, OG0000664, OG0010130, OG0003842, OG0021853, OG0004621, OG0005659, OG0002155, OG0002973, OG0000097, OG0021836, OG0003358, OG0006997, OG0002989, OG0005786, OG0001356, OG0006676, OG0005568, OG0001369, OG0005599, OG0000415, OG0002986, OG0005772, OG0007610, OG0000790, OG0001663, OG0018205, OG0001232, OG0001317, OG0002209, OG0014490, OG0000456, OG0001643, OG0047723, OG0006053, OG0002545, OG0024464, OG0005625, OG0007170, OG0003611, OG0009430, OG0010930, OG0000601, OG0006363, OG0007778, OG0006167, OG0006982, OG0003320, OG0003368, OG0001378, OG0007823, OG0002565, OG0003554, OG0000850, OG0004343, OG0008381, OG0016407, OG0005955, OG0004459, OG0003948, OG0005195, OG0009666, OG0000282, OG0002235, OG0007732, OG0005603, OG0008301, OG0006890, OG0003177, OG0009157, OG0008222, OG0003548, OG0007649, OG0002312, OG0010914, OG0004245, OG0001606, OG0009174, OG0047591, OG0004362, OG0009584, OG0007347, OG0008644, OG0003147, OG0001798, OG0002084, OG0000298, OG0001756, OG0002321, OG0016513, OG0006119, OG0005119, OG0047607, OG0001510, OG0006679, OG0008698, OG0008320, OG0003863, OG0005836, OG0000662, OG0006919, OG0011702, OG0002285, OG0009813, OG0001627, OG0006250, OG0047614, OG0011692, OG0009451, OG0008364, OG0002737, OG0047745, OG0000586, OG0026193, OG0006614, OG0019017, OG0001361, OG0003778, OG0004824, OG0000135, OG0004294, OG0012241, OG0011367, OG0009112, OG0000300, OG0016416, OG0010518, OG0011596, OG0007074, OG0001023, OG0007612, OG0002994, OG0004746, OG0007219, OG0000872, OG0013589
## 6                                                                                                                                                OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0000219, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000685, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0000250, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0000230, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0000045, 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OG0007338, OG0002948, OG0005242, OG0001404, OG0006683, OG0003925, OG0015535, OG0013496, OG0005418, OG0011721, OG0002779, OG0008547, OG0008079, OG0000953, OG0026255, OG0007122, OG0004121, OG0002522, OG0013239, OG0025898, OG0018068, OG0002058, OG0007806, OG0000572, OG0011766, OG0001960, OG0003926, OG0011111, OG0002418, OG0006983, OG0004808, OG0001869, OG0011654, OG0000894, OG0000681, OG0001410, OG0000997, OG0002712, OG0018973, OG0000337, OG0002537, OG0012840, OG0006537, OG0019357, OG0018162, OG0001233, OG0001287, OG0004402, OG0008328, OG0001704, OG0007006, OG0007044, OG0021812, OG0008075, OG0010104, OG0021772, OG0011698, OG0011672, OG0000310, OG0016436, OG0001871, OG0002401, OG0008977, OG0000322, OG0007452, OG0047857, OG0005570, OG0006668, OG0047860, OG0031954, OG0004707, OG0006365, OG0004587, OG0006881, OG0007298, OG0008432, OG0002622, OG0002095, OG0009165, OG0005423, OG0003157, OG0007800, OG0026226, OG0001519, OG0003294, OG0013488, OG0033314, OG0007010, OG0004697, OG0011168, OG0003953, OG0004781, OG0007628, OG0008043, OG0047849, OG0019213, OG0003011, OG0017282, OG0001186, OG0005609, OG0007929, OG0006262, OG0005135, OG0047448, OG0004482, OG0005245, OG0001396, OG0012225, OG0001095, OG0000895, OG0001956, OG0047453, OG0000406, OG0010920, OG0005235, OG0003884, OG0004471, OG0005272, OG0002452, OG0016427, OG0003481, OG0010861, OG0000848, OG0005979, OG0000006, OG0003134, OG0004758, OG0000142, OG0002517, OG0002149, OG0005413, OG0015531, OG0005412, OG0007633, OG0005383, OG0004628, OG0006165, OG0007527, OG0002787, OG0002491, OG0001666, OG0004403, OG0001678, OG0002336, OG0000619, OG0001790, OG0004627, OG0008280, OG0011759, OG0001584, OG0047486, OG0007089, OG0001555, OG0001747, OG0047488, OG0002725, OG0002459, OG0008866, OG0005373, OG0005007, OG0000084, OG0000948, OG0007773, OG0008257, OG0001139, OG0002998, OG0006993, OG0003047, OG0004803, OG0002403, OG0001511, OG0001719, OG0000731, OG0000364, OG0008323, OG0005795, OG0007497, OG0007400, OG0000256, OG0003054, OG0047520, OG0047499, OG0001401, OG0007070, OG0023006, OG0005714, OG0001001, OG0006094, OG0009043, OG0006256, OG0026187, OG0000213, OG0001496, OG0033243, OG0047087, OG0005103, OG0006389, OG0000137, OG0010223, OG0014825, OG0002293, OG0000209, OG0002841, OG0005040, OG0012719, OG0000090, OG0005448, OG0000716, OG0012716, OG0002063, OG0013613, OG0026025, OG0006387, OG0007672, OG0000040, OG0001668, OG0014127, OG0003189, OG0002629, OG0006960, OG0002879, OG0000638, OG0004820, OG0007399, OG0002499, OG0001780, OG0000074, OG0033032, OG0002135, OG0001170, OG0008595, OG0008275, OG0001554, OG0002685, OG0006694, OG0011208, OG0007284, OG0003549, OG0047110, OG0007848, OG0000890, OG0000909, OG0009839, OG0047086, OG0011032, OG0033127, OG0002022, OG0001306, OG0006686, OG0019509, OG0001412, OG0003376, OG0000254, OG0001613, OG0048026, OG0002656, OG0012829, OG0016442, OG0004935, OG0001743, OG0004710, OG0002070, OG0008317, OG0003557, OG0001314, OG0004345, OG0001802, OG0000453, OG0000064, OG0007660, OG0009093, OG0001305, OG0007155, OG0008318, OG0017006, OG0000529, OG0003210, OG0018984, OG0003868, OG0003036, OG0013770, OG0000412, OG0000236, OG0007329, OG0000151, OG0009658, OG0003737, OG0002318, OG0009568, OG0005974, OG0009129, OG0000574, OG0006376, OG0006570, OG0005522, OG0008947, OG0009168, OG0005919, OG0002628, OG0002751, OG0002217, OG0000592, OG0006987, OG0009182, OG0004909, OG0007239, OG0002855, OG0008276, OG0001571, OG0005201, OG0007417, OG0013029, OG0006908, OG0002508, OG0000201, OG0007820, OG0007316, OG0003872, OG0005857, OG0007487, OG0000323, OG0004514, OG0001582, OG0001220, OG0007736, OG0001914, OG0009544, OG0006308, OG0008524, OG0005488, OG0002799, OG0001451, OG0005377, OG0047192, OG0008284, OG0005816, OG0003128, OG0003387, OG0005815, OG0007478, OG0009565, OG0008411, OG0006634, OG0001525, OG0002479, OG0005915, OG0008870, OG0004776, OG0000721, OG0001799, OG0047174, OG0005321, OG0009411, OG0008074, OG0002297, OG0010956, OG0009571, OG0003639, OG0003291, OG0000344, OG0002344, OG0009582, OG0002211, OG0000943, OG0000643, OG0006604, OG0009180, OG0008837, OG0001164, OG0002728, OG0004988, OG0005535, OG0000800, OG0000168, OG0047166, OG0007775, OG0004789, OG0000847, OG0008797, OG0003927, OG0004788, OG0002166, OG0004995, OG0009195, OG0004914, OG0006096, OG0006010, OG0001720, OG0033075, OG0012827, OG0000241, OG0001216, OG0001234, OG0008046, OG0004903, OG0000402, OG0003371, OG0011266, OG0007243, OG0002354, OG0003251, OG0004216, OG0002908, OG0007324, OG0006513, OG0003769, OG0019446, OG0004460, OG0002034, OG0007253, OG0006180, OG0002590, OG0011764, OG0004312, OG0007111, OG0012858, OG0047245, OG0000612, OG0034480, OG0001487, OG0009140, OG0000115, OG0011207, OG0001405, OG0008496, OG0000546, OG0002461, OG0012180, OG0002421, OG0002716, OG0001868, OG0000235, OG0006098, OG0008861, OG0007160, OG0007745, OG0003480, OG0016997, OG0002668, OG0004872, OG0006118, OG0004842, OG0001572, OG0003048, OG0024547, OG0002201, OG0007114, OG0011718, OG0006100, OG0003574, OG0000978, OG0009485, OG0009587, OG0000359, OG0000273, OG0009091, OG0005524, OG0005898, OG0007424, OG0004527, OG0001953, OG0008389, OG0000781, OG0007836, OG0006212, OG0008598, OG0047335, OG0047313, OG0013674, OG0007048, OG0047339, OG0005651, OG0009896, OG0000818, OG0000777, OG0006678, OG0007601, OG0000311, OG0003567, OG0006566, OG0002902, OG0005701, OG0001883, OG0008350, OG0002724, OG0002433, OG0007977, OG0001776, OG0006070, OG0015528, OG0033109, OG0002234, OG0017003, OG0003356, OG0005395, OG0008588, OG0005831, OG0000297, OG0032781, OG0004405, OG0004125, OG0004504, OG0002602, OG0012844, OG0002090, OG0005208, OG0047325, OG0007019, OG0000046, OG0004252, OG0008577, OG0004738, OG0007479, OG0004883, OG0007801, OG0002286, OG0006642, OG0000623, OG0002228, OG0000431, OG0000159, OG0008254, OG0004340, OG0004605, OG0005134, OG0011055, OG0002888, OG0002666, OG0004559, OG0001452, OG0013656, OG0003330, OG0006243, OG0015166, OG0003854, OG0007457, OG0008252, OG0005752, OG0026896, OG0000573, OG0010209, OG0008227, OG0011694, OG0005583, OG0001136, OG0047622, OG0009935, OG0008250, OG0011241, OG0014001, OG0001614, OG0004270, OG0008302, OG0023995, OG0001030, OG0015805, OG0006770, OG0003115, OG0011774, OG0002042, OG0006015, OG0011635, OG0002246, OG0020445, OG0003239, OG0004477, OG0002295, OG0005824, OG0004960, OG0014681, OG0033045, OG0002853, OG0009611, OG0001768, OG0008875, OG0003820, OG0003470, OG0047628, OG0001031, OG0004311, OG0000679, OG0006302, OG0001503, OG0008016, OG0001728, OG0026199, OG0026211, OG0007176, OG0009633, OG0007058, OG0010251, OG0047818, OG0000183, OG0008581, OG0003390, OG0007097, OG0003266, OG0000242, OG0001194, OG0047794, OG0009580, OG0004944, OG0002490, OG0005429, OG0007808, OG0000858, OG0015744, OG0008394, OG0001495, OG0007928, OG0001632, OG0005475, OG0006342, OG0002750, OG0001079, OG0007469, OG0006297, OG0002756, OG0006322, OG0005937, OG0004349, OG0003666, OG0008094, OG0009872, OG0011294, OG0000774, OG0000360, OG0006550, OG0001270, OG0004547, OG0005600, OG0007516, OG0009314, OG0014584, OG0014695, OG0000536, OG0017189, OG0004244, OG0008864, OG0002715, OG0006933, OG0005086, OG0003265, OG0003441, OG0008011, OG0000861, OG0001247, OG0003447, OG0047966, OG0001852, OG0003514, OG0007909, OG0033353, OG0000664, OG0010130, OG0003842, OG0021853, OG0004621, OG0005659, OG0002155, OG0002973, OG0000097, OG0021836, OG0003358, OG0006997, OG0002989, OG0005786, OG0001356, OG0006676, OG0005568, OG0001369, OG0005599, OG0000415, OG0002986, OG0005772, OG0007610, OG0000790, OG0001663, OG0018205, OG0001232, OG0001317, OG0002209, OG0014490, OG0001643, OG0047723, OG0006053, OG0002545, OG0024464, OG0005625, OG0007170, OG0003611, OG0009430, OG0010930, OG0000601, OG0006363, OG0007778, OG0006167, OG0006982, OG0003320, OG0003368, OG0001378, OG0007823, OG0002565, OG0003554, OG0000850, OG0004343, OG0008381, OG0016407, OG0005955, OG0004459, OG0003948, OG0005195, OG0009666, OG0000282, OG0002235, OG0007732, OG0005603, OG0008301, OG0006890, OG0003177, OG0009157, OG0008222, OG0003548, OG0007649, OG0002312, OG0010914, OG0004245, OG0001606, OG0009174, OG0047591, OG0004362, OG0009584, OG0007347, OG0008644, OG0003147, OG0001798, OG0002084, OG0000298, OG0001756, OG0002321, OG0016513, OG0006119, OG0005119, OG0047607, OG0001510, OG0006679, OG0008698, OG0008320, OG0003863, OG0005836, OG0000662, OG0006919, OG0011702, OG0002285, OG0009813, OG0001627, OG0006250, OG0047614, OG0011692, OG0009451, OG0008364, OG0002737, OG0047745, OG0000586, OG0026193, OG0006614, OG0019017, OG0001361, OG0003778, OG0004824, OG0000135, OG0004294, OG0012241, OG0011367, OG0009112, OG0000300, OG0016416, OG0010518, OG0011596, OG0007074, OG0001023, OG0007612, OG0002994, OG0004746, OG0007219, OG0000872, OG0013589
## 7                                             OG0004246, OG0021513, OG0002904, OG0033168, OG0014398, OG0006163, OG0008719, OG0019224, OG0014404, OG0001209, OG0000910, OG0001311, OG0000025, OG0006944, OG0000145, OG0000505, OG0001374, OG0000219, OG0003064, OG0008829, OG0011330, OG0015711, OG0011176, OG0004787, OG0001767, OG0008460, OG0002345, OG0001382, OG0001890, OG0000685, OG0000054, OG0033196, OG0001523, OG0005198, OG0000418, OG0002138, OG0006081, OG0002353, OG0014247, OG0009823, OG0000250, OG0002541, OG0001459, OG0047540, OG0000349, OG0009199, OG0002052, OG0015302, OG0005120, OG0002493, OG0001333, OG0000230, OG0011983, OG0002088, OG0002358, OG0010240, OG0008657, OG0005197, OG0003381, OG0010846, OG0001602, OG0000437, OG0006899, OG0009632, OG0001160, OG0000825, OG0002810, OG0002347, OG0004869, OG0005298, OG0003677, OG0009309, OG0002019, OG0003790, OG0009183, OG0001246, OG0000174, OG0000045, OG0003013, OG0048110, OG0048111, OG0047319, OG0000879, OG0007188, OG0003847, OG0010448, 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OG0009174, OG0047591, OG0004362, OG0009584, OG0007347, OG0008644, OG0003147, OG0001798, OG0002084, OG0000298, OG0001756, OG0002321, OG0016513, OG0006119, OG0005119, OG0047607, OG0001510, OG0006679, OG0008698, OG0008320, OG0003863, OG0005836, OG0000662, OG0006919, OG0011702, OG0002285, OG0009813, OG0001627, OG0006250, OG0047614, OG0011692, OG0009451, OG0008364, OG0002737, OG0047745, OG0000586, OG0026193, OG0006614, OG0019017, OG0001361, OG0003778, OG0004824, OG0000135, OG0004294, OG0012241, OG0011367, OG0009112, OG0000300, OG0016416, OG0010518, OG0011596, OG0007074, OG0001023, OG0007612, OG0002994, OG0004746, OG0007219, OG0000872, OG0013589
##                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              gfams_excl_b
## 2 OG0049752, OG0005739, OG0030846, OG0014595, OG0049753, OG0005523, OG0004571, OG0018356, OG0049760, OG0006551, OG0024749, OG0003805, OG0002333, OG0010197, OG0003913, OG0005088, OG0009647, OG0000055, OG0001696, OG0010918, OG0003363, OG0019451, OG0005716, OG0006930, OG0008099, OG0005768, OG0007939, OG0010135, OG0005756, OG0009156, OG0021038, OG0002945, OG0011317, OG0004475, OG0024737, OG0002038, OG0000187, OG0004916, OG0001162, OG0004963, OG0002481, OG0000104, OG0000009, OG0002967, OG0000553, OG0000513, OG0000817, OG0000136, OG0001411, OG0005286, OG0002512, OG0009406, OG0014608, OG0007714, OG0008242, OG0002997, OG0006156, OG0008006, OG0005214, OG0002140, OG0006313, OG0003200, OG0022858, OG0008026, OG0003738, OG0003449, OG0005745, OG0014531, OG0001477, OG0002072, OG0009910, OG0003109, OG0006227, OG0005428, OG0009144, OG0011613, OG0015794, OG0002770, OG0001339, OG0005948, OG0004048, OG0024833, OG0002834, OG0030997, OG0000107, OG0000043, OG0009096, OG0015297, OG0005137, OG0000234, OG0014209, OG0008373, OG0004617, OG0004574, OG0044209, OG0031677, OG0000594, OG0009865, OG0010153, OG0019520, OG0005604, OG0024797, OG0005971, OG0031822, OG0004800, OG0005455, OG0003923, OG0018685, OG0013333, OG0000053, OG0007833, OG0000566, OG0000017, OG0005385, OG0011641, OG0042957, OG0000264, OG0030877, OG0000324, OG0021033, OG0006586, OG0004845, OG0027026, OG0001762, OG0016819, OG0002648, OG0003220, OG0007283, OG0002637, OG0000276, OG0001121, OG0004139, OG0042958, OG0003060, OG0006559, OG0002189, OG0000382, OG0018517, OG0003728, OG0006241, OG0004495, OG0005507, OG0001363, OG0016665, OG0008772, OG0004568, OG0004291, OG0003500, OG0003455, OG0002213, OG0005367, OG0006300, OG0007746, OG0027115, OG0009607, OG0006767, OG0007642, OG0005203, OG0030829, OG0001123, OG0004829, OG0001446, OG0004956, OG0004018, OG0000073, OG0008269, OG0003353, OG0008265, OG0007275, OG0008878, OG0004659, OG0006335, OG0014612, OG0021001, OG0013601, OG0004996, OG0000122, OG0000923, OG0010954, OG0008402, OG0005711, OG0000091, OG0012214, OG0000085, OG0044572, OG0003448, OG0006526, OG0005248, OG0010179, OG0007315, OG0002671, OG0004965, OG0001029, OG0031768, OG0005305, OG0049949, OG0000065, OG0000069, OG0049952, OG0030959, OG0009682, OG0000569, OG0000029
## 3                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            OG0000808, OG0000253, OG0024758, OG0031798, OG0004764, OG0000095, OG0024773, OG0000105, OG0000149, OG0024753, OG0017327, OG0001121, OG0005081, OG0025445, OG0014691, OG0010529, OG0013706, OG0003597, OG0000055, OG0000107, OG0012368, OG0000086, OG0024191, OG0008693, OG0000088, OG0020996, OG0010543, OG0007703, OG0010985, OG0010567, OG0008203, OG0002156, OG0005159, OG0001839, OG0012170, OG0042971, OG0000346, OG0006761, OG0022404, OG0001061, OG0003040, OG0003898, OG0009156, OG0015298, OG0015835, OG0030991, OG0006328, OG0000663, OG0001637, OG0044833, OG0005417, OG0008513, OG0003773, OG0006008, OG0005510, OG0001182, OG0049752, OG0030925, OG0025446, OG0002073, OG0000029, OG0049857, OG0021031, OG0012855, OG0016794, OG0000452, OG0012291, OG0004753, OG0010926, OG0000180, OG0002838, OG0044233, OG0019143, OG0014281, OG0013695, OG0000001, OG0007982, OG0002477, OG0009250, OG0000420, OG0030874, OG0004021, OG0006621, OG0049760, OG0001762, OG0000052, OG0007651, OG0014692, OG0002968, OG0011528, OG0006929, OG0049753, OG0008050, OG0031721, OG0044886, OG0031934, OG0000694, OG0003462, OG0005324, OG0004778, OG0007922, OG0015299, OG0005146, OG0005884, OG0013670, OG0001478, OG0015297, OG0002558, OG0044708, OG0000110, OG0024719, OG0005905, OG0013661, OG0003285, OG0000000, OG0004519, OG0002333, OG0026995, OG0021001, OG0006312, OG0004996, OG0010197, OG0008758, OG0000069, OG0002219, OG0010507, OG0015606, OG0007146, OG0027402, OG0010548, OG0000141, OG0007449, OG0007604, OG0014724, OG0008224, OG0024703, OG0006079, OG0000169
## 4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      OG0009557, OG0000648, OG0008699, OG0049762, OG0003285, OG0014237, OG0003596, OG0012788, OG0000052, OG0007305, OG0015375, OG0000292, OG0008001, OG0000345, OG0000324, OG0010604, OG0000073, OG0012027, OG0000956, OG0002370, OG0000533, OG0000076, OG0000055, OG0017121, OG0011141, OG0000871, OG0002647, OG0009947, OG0006086, OG0011652, OG0000043, OG0000017, OG0002273, OG0009639, OG0012368, OG0001336, OG0000080, OG0026530, OG0001149, OG0005684, OG0001835, OG0000009, OG0001601, OG0007507, OG0011191, OG0005006, OG0000134, OG0005457, OG0004876, OG0019129, OG0000132, OG0010989, OG0013281, OG0014738, OG0011371, OG0014188, OG0011821, OG0014072, OG0010617, OG0015872
## 5                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             OG0000564, OG0006527, OG0010537, OG0024852, OG0000182, OG0019835, OG0016034, OG0000076, OG0010868, OG0009548, OG0000098, OG0000187, OG0016819, OG0000747, OG0012335, OG0001301, OG0001588, OG0001995, OG0000340, OG0000207, OG0000005, OG0010504, OG0011191, OG0004876, OG0003901, OG0003596, OG0033901, OG0000009, OG0014364, OG0000937, OG0002417, OG0002796, OG0000017, OG0000088, OG0005063, OG0003285, OG0000052, OG0001909, OG0000924, OG0000107, OG0012754, OG0000050, OG0001061, OG0012788, OG0000630, OG0012027, OG0000110, OG0007760, OG0011288, OG0019217, OG0014555, OG0033889, OG0013331, OG0012063, OG0000029, OG0015794, OG0008690, OG0008371, OG0000169, OG0009859, OG0010121, OG0000571, OG0002055, OG0000203, OG0010986, OG0034107, OG0001099, OG0004537, OG0049879, OG0000026, OG0013537, OG0000178, OG0006056, OG0015154, OG0006704, OG0042904, OG0000153, OG0009869, OG0000004, OG0033189, OG0049908, OG0009682, OG0019591, OG0009367, OG0014692, OG0000118, OG0031998, OG0024745, OG0011777, OG0007969, OG0006274, OG0007520, OG0007950, OG0001443, OG0031904, OG0002960, OG0000348, OG0049762, OG0044481, OG0000399, OG0000560, OG0000032, OG0000581, OG0017357, OG0000350, OG0002023, OG0012033, OG0042960, OG0026519, OG0003614, OG0012143, OG0012917, OG0019629, OG0002849, OG0000012, OG0000104, OG0011826, OG0018500, OG0000330, OG0003427, OG0000047, OG0005579, OG0000078, OG0000075, OG0001935, OG0009380, OG0000132, OG0026534, OG0002442, OG0001320, OG0025403, OG0006129, OG0004053, OG0000535, OG0011334
## 6                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          OG0000017, OG0000024, OG0001647, OG0006473, OG0000808, OG0021017, OG0017118, OG0014389, OG0003596, OG0025490, OG0001703, OG0008485, OG0008436, OG0014197, OG0000038, OG0000747, OG0010819, OG0033889, OG0007259, OG0000042, OG0003285, OG0019131, OG0003991, OG0009429, OG0002373, OG0004006, OG0000789, OG0012146, OG0001229, OG0008178, OG0024815, OG0000114, OG0044796, OG0001061, OG0004777, OG0013436, OG0000830, OG0022048, OG0009324, OG0042909, OG0000081, OG0000182, OG0002178, OG0026505, OG0001759, OG0009966, OG0002823, OG0000023, OG0000000, OG0000029, OG0011141, OG0007232, OG0049862, OG0000169, OG0000399, OG0000711, OG0012610, OG0000080, OG0004418, OG0011138, OG0008534, OG0026516, OG0031821, OG0044820, OG0000959, OG0016039, OG0000423, OG0000988, OG0008410, OG0015607, OG0000519, OG0015603, OG0014243, OG0015641, OG0004651, OG0000033, OG0001099, OG0015311, OG0000207, OG0001844, OG0001336, OG0018678, OG0007579, OG0000161, OG0004036, OG0019484, OG0014551, OG0006900, OG0000541, OG0021047, OG0010085, OG0000253, OG0000728, OG0005244, OG0011531, OG0018728, OG0024853, OG0010627, OG0002817, OG0009909, OG0015304, OG0011701, OG0030841, OG0000015, OG0004344, OG0030890, OG0006847, OG0013328, OG0022043, OG0030770, OG0005084, OG0003637, OG0003209, OG0010171, OG0000324, OG0014812, OG0003899, OG0001386, OG0000238, OG0013984, OG0030938, OG0001443, OG0008221, OG0003153, OG0006647, OG0012257, OG0000013, OG0002591
## 7                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     OG0009308, OG0004876, OG0007999, OG0004875, OG0017799, OG0008134, OG0000086, OG0001909, OG0003085, OG0011191, OG0002546, OG0006751, OG0002313, OG0002309, OG0000017, OG0000348, OG0000134, OG0004575, OG0001954, OG0002606, OG0001690, OG0001995, OG0000127, OG0004522, OG0009130, OG0000483, OG0005349, OG0000100, OG0001598, OG0006042, OG0000788, OG0019136, OG0000549, OG0009638, OG0000497, OG0000065, OG0019315, OG0010534, OG0001662, OG0000845, OG0000029, OG0006835, OG0006307, OG0000659, OG0000050, OG0000637, OG0000292, OG0004426, OG0012247, OG0000002, OG0044537, OG0044653, OG0001301, OG0022451, OG0003908, OG0000059, OG0000263, OG0000000, OG0000013, OG0012754, OG0033953, OG0006393, OG0002607

A look at the number of genes belonging to enriched gene families between comparisons

# Group by module and summarize
commongenes <- PFLA_SPUR_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$table_a_common %>%
  group_by(module) %>%
  summarize(
    numgenes = n(),
    genes = paste(ifelse(n() > 3, paste0(paste(head(id, 3), collapse = ",")," ..."), paste(id, collapse = ", ")), collapse = ", ")
  )

# Rename columns
colnames(commongenes) <- c("module", "numgenes", "genes")

commongenes
## # A tibble: 20 × 3
##    module numgenes genes                                           
##    <chr>     <int> <chr>                                           
##  1 14__16      121 TCONS_00023217,TCONS_00023345,TCONS_00024858 ...
##  2 15__13      107 TCONS_00031733,TCONS_00032648,TCONS_00038402 ...
##  3 15__21      103 TCONS_00031733,TCONS_00032648,TCONS_00054720 ...
##  4 15__24      146 TCONS_00054720,TCONS_00024740,TCONS_00025053 ...
##  5 17__15      126 TCONS_00038723,TCONS_00032297,TCONS_00032533 ...
##  6 17__21      168 TCONS_00038723,TCONS_00032270,TCONS_00032272 ...
##  7 17__24      199 TCONS_00038723,TCONS_00032270,TCONS_00032272 ...
##  8 17__25      270 TCONS_00038723,TCONS_00032270,TCONS_00032272 ...
##  9 19__15      132 TCONS_00024521,TCONS_00023416,TCONS_00023644 ...
## 10 19__21      189 TCONS_00032267,TCONS_00009468,TCONS_00024521 ...
## 11 20__15       91 TCONS_00025254,TCONS_00023950,TCONS_00025325 ...
## 12 20__21      154 TCONS_00032259,TCONS_00032260,TCONS_00032261 ...
## 13 20__24      190 TCONS_00032259,TCONS_00032260,TCONS_00032261 ...
## 14 20__25      266 TCONS_00032259,TCONS_00032260,TCONS_00032261 ...
## 15 21__15       87 TCONS_00052333,TCONS_00023006,TCONS_00024151 ...
## 16 21__21      125 TCONS_00032266,TCONS_00023006,TCONS_00025060 ...
## 17 22__15       66 TCONS_00032247,TCONS_00024155,TCONS_00024279 ...
## 18 22__21      123 TCONS_00039101,TCONS_00039119,TCONS_00032247 ...
## 19 22__23      112 TCONS_00025536,TCONS_00025537,TCONS_00056380 ...
## 20 22__24      148 TCONS_00039101,TCONS_00039119,TCONS_00024155 ...

The gene age enrichment and functional category enrichment of these genes:

PFLA_SPUR_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$
    age_a_common$heatmap +
PFLA_SPUR_COMPARISON_OF$orthology_overlap_modules$
  genes_in_common_fams$commonfams$
    cog_a_comon$heatmap

And the GO terms of these genes:

# Add a new column with the name of the original data frame
keygenes_commonfams_GO <- 
  bind_rows(
    PFLA_SPUR_COMPARISON_OF$orthology_overlap_modules$
      genes_in_common_fams$commonfams$go_a_common$GOtable, 
    .id = "pair_gfams"
    )

# Rename the new column
colnames(keygenes_commonfams_GO)[1] <- "pair_gfams"

keygenes_commonfams_GO$logp <- 
  -log10(as.numeric(keygenes_commonfams_GO$classicFisher))

keygenes_commonfams_GO$logp[is.na(keygenes_commonfams_GO$logp)] <- 
  max(keygenes_commonfams_GO$logp, na.rm = T)

keygenes_commonfams_GO$obsexp <- 
  as.numeric(keygenes_commonfams_GO$Significant/keygenes_commonfams_GO$Expected)

keygenes_commonfams_GO <- 
  keygenes_commonfams_GO[
    order(
      keygenes_commonfams_GO$pair_gfams,
      keygenes_commonfams_GO$Term
      ),
    ]

keygenes_commonfams_GO$Term <- 
  factor(
    keygenes_commonfams_GO$Term, 
    levels = unique(keygenes_commonfams_GO$Term)
    )

The plot of the GO enrichment analysis:

gg <- keygenes_commonfams_GO  %>% 
  ggplot(
    aes(x=pair_gfams, y = Term, size = Significant, color = logp)
    ) + geom_point() +
  theme_bw() + 
  theme(
    axis.text.x = element_text(angle = 45, hjust = 1, size = 8 )
    )+ 
  theme(
    axis.text.y.left = element_text(hjust = 1, size = 8 ),
    legend.title=element_text(size=8 ),
    legend.text=element_text(size=8 )
    )+ 
  scale_size_continuous(
    name = "Genes affected",
    range = c(2,6)
    ) + scale_color_viridis("-log10(P-value)") +
  xlab("")+ylab("")

#gg

Saving the data

We will save these two objects for further analysis and reference:

save(
  PFLA_BLAN_COMPARISON_OF,
  PFLA_SPUR_COMPARISON_OF,
  file = "outputs/rda/species_comparison_orthofinder.rda"
)